Title: R codes for estimating water retention and infiltration model
parameters using experimental data
Diff between HydroMe versions 1.0 dated 2007-01-14 and 2.0 dated 2013-05-03
Description: This package is version 2 of HydroMe v.1 package. It
estimates the parameters in infiltration and water retention
models by curve-fitting method. The models considered are those
that are commonly used in soil science. It has new models for
water retention characteristic curve and debugging of errors in
HydroMe v.1
Author: Christian Thine Omuto
Maintainer: Christian Thine Omuto
HydroMe-1.0/HydroMe/R/SSGampt.R |only
HydroMe-1.0/HydroMe/R/SSMgg.R |only
HydroMe-1.0/HydroMe/R/SSbrook.R |only
HydroMe-1.0/HydroMe/R/SScamp.R |only
HydroMe-1.0/HydroMe/R/SShort.R |only
HydroMe-1.0/HydroMe/R/SSvan.R |only
HydroMe-1.0/HydroMe/data/Infilt.rda |only
HydroMe-1.0/HydroMe/data/Wret.rda |only
HydroMe-1.0/HydroMe/data/infiltration.rda |only
HydroMe-1.0/HydroMe/data/pfdata.rda |only
HydroMe-1.0/HydroMe/doc |only
HydroMe-1.0/HydroMe/man/Infilt.Rd |only
HydroMe-1.0/HydroMe/man/SSGampt.Rd |only
HydroMe-1.0/HydroMe/man/SSMgg.Rd |only
HydroMe-1.0/HydroMe/man/SSbrook.Rd |only
HydroMe-1.0/HydroMe/man/SScamp.Rd |only
HydroMe-1.0/HydroMe/man/SShort.Rd |only
HydroMe-1.0/HydroMe/man/SSvan.Rd |only
HydroMe-1.0/HydroMe/man/Wret.Rd |only
HydroMe-1.0/HydroMe/man/infiltration.Rd |only
HydroMe-1.0/HydroMe/man/pfdata.Rd |only
HydroMe-2.0/HydroMe/DESCRIPTION | 35 ++++++++----
HydroMe-2.0/HydroMe/MD5 |only
HydroMe-2.0/HydroMe/NAMESPACE |only
HydroMe-2.0/HydroMe/R/Brook.R |only
HydroMe-2.0/HydroMe/R/Campbel.R |only
HydroMe-2.0/HydroMe/R/Dstart.R |only
HydroMe-2.0/HydroMe/R/Expo.R |only
HydroMe-2.0/HydroMe/R/Ruso.R |only
HydroMe-2.0/HydroMe/R/SSfredlund.R |only
HydroMe-2.0/HydroMe/R/SSgampt.R |only
HydroMe-2.0/HydroMe/R/SSgard.R | 2
HydroMe-2.0/HydroMe/R/SSgardner.R |only
HydroMe-2.0/HydroMe/R/SShorton.R |only
HydroMe-2.0/HydroMe/R/SSkosugi.R |only
HydroMe-2.0/HydroMe/R/SSomuto.R |only
HydroMe-2.0/HydroMe/R/SSphilip.R | 2
HydroMe-2.0/HydroMe/R/SSvgm.R |only
HydroMe-2.0/HydroMe/R/Tani.R |only
HydroMe-2.0/HydroMe/data/infilt.rda |only
HydroMe-2.0/HydroMe/data/isric.rda |binary
HydroMe-2.0/HydroMe/man/Brook.Rd |only
HydroMe-2.0/HydroMe/man/Campbel.Rd |only
HydroMe-2.0/HydroMe/man/Dstart.Rd |only
HydroMe-2.0/HydroMe/man/Expo.Rd |only
HydroMe-2.0/HydroMe/man/HydroMe-package.Rd | 60 ++++++++++++----------
HydroMe-2.0/HydroMe/man/Ruso.Rd |only
HydroMe-2.0/HydroMe/man/SSfredlund.Rd |only
HydroMe-2.0/HydroMe/man/SSgampt.Rd |only
HydroMe-2.0/HydroMe/man/SSgard.Rd | 79 +++++++++++++++--------------
HydroMe-2.0/HydroMe/man/SSgardner.Rd |only
HydroMe-2.0/HydroMe/man/SShorton.Rd |only
HydroMe-2.0/HydroMe/man/SSkosugi.Rd |only
HydroMe-2.0/HydroMe/man/SSomuto.Rd |only
HydroMe-2.0/HydroMe/man/SSphilip.Rd | 59 ++++++++++++---------
HydroMe-2.0/HydroMe/man/SSvgm.Rd |only
HydroMe-2.0/HydroMe/man/Tani.Rd |only
HydroMe-2.0/HydroMe/man/infilt.Rd |only
HydroMe-2.0/HydroMe/man/isric.Rd | 34 +++++++-----
59 files changed, 157 insertions(+), 114 deletions(-)
Title: Useful tools for structural equation modeling.
Diff between semTools versions 0.3-2 dated 2013-03-17 and 0.4-0 dated 2013-05-03
Description: This package provide useful tools for structural equation
modeling analysis.
Author: Sunthud Pornprasertmanit [aut, cre], Patrick Miller [aut], Alex
Schoemann [aut], Yves Rosseel [aut], Corbin Quick [ctb],
Mauricio Garnier-Villarreal [ctb], James Selig [ctb], Aaron
Boulton [ctb], Kristopher Preacher [ctb], Donna Coffman [ctb],
Mijke Rhemtulla [ctb], Alexander Robitzsch [ctb], Craig Enders
[ctb], Ruber Arslan [ctb], Bell Clinton [ctb], Pavel Panko
[ctb]
Maintainer: Sunthud Pornprasertmanit
DESCRIPTION | 10 +++++-----
MD5 | 21 +++++++++++++++------
NAMESPACE | 6 ++++--
R/clipboard.R | 13 +++++++++++--
R/compareFit.R |only
R/efa.R |only
R/fitIndices.R | 2 +-
R/imposeStart.R |only
R/parcelAllocation.R | 14 ++++++++------
man/EFA-class.Rd |only
man/FitDiff-class.Rd |only
man/clipboard.Rd | 10 +++++-----
man/compareFit.Rd |only
man/efaUnrotate.Rd |only
man/imposeStart.Rd |only
man/rotate.Rd |only
16 files changed, 49 insertions(+), 27 deletions(-)
Title: Multivariate Sensitivity Analysis
Diff between multisensi versions 1.0-3 dated 2010-05-25 and 1.0-6 dated 2013-05-03
Description: An R package to perform sensitivity analysis on a model
with multivariate output
Author: Matieyendou LAMBONI
Maintainer: Herve MONOD
DESCRIPTION | 16 +-
MD5 | 32 +++--
NAMESPACE | 3
NEWS |only
R/acp.r | 47 ++++++-
R/anovadec.r | 125 ++++++++++----------
R/gsi.r | 246 ++++++++++++++++++++---------------------
R/plot.dynsi.r | 199 ++++++++++++++++-----------------
R/yapprox.r | 5
data/biomasseY.rda |only
inst/CITATION |only
inst/doc/multisensi-manual.pdf |binary
man/acp.Rd | 13 +-
man/anovadec.Rd | 4
man/biomasseY.Rd |only
man/dynsi.Rd | 7 -
man/gsi.Rd | 6 -
man/multisensi-package.Rd | 6 -
man/plot.dynsi.Rd | 9 +
19 files changed, 382 insertions(+), 336 deletions(-)
Title: Parametric rate comparison
Diff between iteRates versions 3.0 dated 2013-03-16 and 3.1 dated 2013-05-03
Description: Iterates through a phylogenetic tree to identify regions
of rate variation using the parametric rate comparison test.
Author: Premal Shah, Benjamin Fitzpatrick, James Fordyce
Maintainer: Ben Fitzpatrick
iteRates-3.0/iteRates/man/tree.rand.test.rd |only
iteRates-3.1/iteRates/DESCRIPTION | 9 +++++----
iteRates-3.1/iteRates/MD5 | 4 ++--
iteRates-3.1/iteRates/man/tree.rand.test.Rd |only
4 files changed, 7 insertions(+), 6 deletions(-)
Title: Categorical Data Analysis and Visualization
Diff between extracat versions 1.6-1 dated 2012-10-04 and 1.6-2 dated 2013-05-03
Description: graphics and more for categorical data
Author: Alexander Pilhoefer
Maintainer: Alexander Pilhoefer
extracat-1.6-1/extracat/man/BCImat.Rd |only
extracat-1.6-2/extracat/DESCRIPTION | 17
extracat-1.6-2/extracat/MD5 | 83 +
extracat-1.6-2/extracat/NAMESPACE | 5
extracat-1.6-2/extracat/R/auxiliar.R | 37
extracat-1.6-2/extracat/R/barysort.R | 222 ++++
extracat-1.6-2/extracat/R/cfcl.R |only
extracat-1.6-2/extracat/R/cpcp2.R | 3
extracat-1.6-2/extracat/R/fastRcrit.R | 147 +++
extracat-1.6-2/extracat/R/fluctuations.R | 338 +++++--
extracat-1.6-2/extracat/R/fluctuations2.R |only
extracat-1.6-2/extracat/R/heattile.R |only
extracat-1.6-2/extracat/R/newrmb5.R | 200 +++-
extracat-1.6-2/extracat/R/optile_skeleton.r | 399 ++------
extracat-1.6-2/extracat/R/qBCI.R | 213 ++--
extracat-1.6-2/extracat/R/simmich.R |only
extracat-1.6-2/extracat/R/sortandcut.R |only
extracat-1.6-2/extracat/R/subtree.R |only
extracat-1.6-2/extracat/R/tfluctile.R |only
extracat-1.6-2/extracat/R/untableSet.R | 14
extracat-1.6-2/extracat/data/CPScluster.rda |binary
extracat-1.6-2/extracat/data/GeneEx.RData |only
extracat-1.6-2/extracat/data/carcustomers.rda |binary
extracat-1.6-2/extracat/data/datalist |only
extracat-1.6-2/extracat/data/dmc.rda |binary
extracat-1.6-2/extracat/data/olives.rda |binary
extracat-1.6-2/extracat/data/plants.rda |binary
extracat-1.6-2/extracat/man/GeneEx.Rd |only
extracat-1.6-2/extracat/man/ME.Rd |only
extracat-1.6-2/extracat/man/barysort.Rd | 13
extracat-1.6-2/extracat/man/boxplot2g.Rd | 3
extracat-1.6-2/extracat/man/carcustomers.Rd | 2
extracat-1.6-2/extracat/man/cfcl.Rd |only
extracat-1.6-2/extracat/man/cfluctile.Rd | 102 +-
extracat-1.6-2/extracat/man/cmat.Rd |only
extracat-1.6-2/extracat/man/cohen.Rd |only
extracat-1.6-2/extracat/man/combcl.Rd |only
extracat-1.6-2/extracat/man/fluctile.Rd | 6
extracat-1.6-2/extracat/man/getIs.Rd |only
extracat-1.6-2/extracat/man/getIs2.Rd |only
extracat-1.6-2/extracat/man/heattile.Rd |only
extracat-1.6-2/extracat/man/optME.Rd |only
extracat-1.6-2/extracat/man/optile.Rd | 51 -
extracat-1.6-2/extracat/man/plants.Rd | 6
extracat-1.6-2/extracat/man/qBCI.Rd | 25
extracat-1.6-2/extracat/man/regmax.Rd | 2
extracat-1.6-2/extracat/man/rmb.Rd | 14
extracat-1.6-2/extracat/man/rmbmat.Rd | 5
extracat-1.6-2/extracat/man/sortandcut.Rd |only
extracat-1.6-2/extracat/man/spread.Rd | 4
extracat-1.6-2/extracat/man/subtable.Rd | 24
extracat-1.6-2/extracat/man/tfluctile.Rd | 20
extracat-1.6-2/extracat/src/optile.c | 1233 ++++++++++++++++++++------
53 files changed, 2272 insertions(+), 916 deletions(-)
Title: Toolkit for Weighting and Analysis of Nonequivalent Groups
Diff between twang versions 1.3-14 dated 2013-04-10 and 1.3-18 dated 2013-05-03
Description: This package offers functions for propensity score
estimating and weighting, nonresponse weighting, and diagnosis
of the weights. This package was originally developed by Drs.
Ridgeway, McCaffrey, and Morral. Burgette, Griffin and
McCaffrey updated the package in 2011-13.
Author: Greg Ridgeway
Maintainer: Lane Burgette
twang-1.3-14/twang/R/ps.summary.R |only
twang-1.3-14/twang/R/ps.summary2.R |only
twang-1.3-14/twang/man/ps.summary.Rd |only
twang-1.3-18/twang/DESCRIPTION | 8 +--
twang-1.3-18/twang/MD5 | 29 +++++--------
twang-1.3-18/twang/NAMESPACE | 2
twang-1.3-18/twang/R/bal.stat.R | 4 -
twang-1.3-18/twang/R/bal.table.R | 2
twang-1.3-18/twang/R/esStat.R | 7 +--
twang-1.3-18/twang/R/ksStat.R | 5 +-
twang-1.3-18/twang/R/means.table.R | 74 ++++++++++++++++++++++------------
twang-1.3-18/twang/R/mnps.R | 8 ++-
twang-1.3-18/twang/R/ps.R | 3 +
twang-1.3-18/twang/R/ps.summary.new.R | 16 ++++---
twang-1.3-18/twang/inst/doc/mnps.pdf |binary
twang-1.3-18/twang/inst/doc/twang.pdf |binary
twang-1.3-18/twang/man/bal.stat.Rd | 6 +-
17 files changed, 100 insertions(+), 64 deletions(-)
Title: ace() and avas() for selecting regression transformations
Diff between acepack versions 1.3-3.2 dated 2012-10-30 and 1.3-3.3 dated 2013-05-03
Description: ACE and AVAS methods for choosing regression
transformations.
Author: Phil Spector, Jerome Friedman, Robert Tibshirani, Thomas Lumley
Maintainer: Jonathan Baron
DESCRIPTION | 7 ++++---
MD5 | 4 ++--
src/avas.f | 13 +++++++------
3 files changed, 13 insertions(+), 11 deletions(-)
Title: Sensitivity Analysis
Diff between sensitivity versions 1.6-1 dated 2012-12-28 and 1.7 dated 2013-05-03
Description: A collection of functions for factor screening, global
sensitivity analysis and reliability sensitivity analysis of
model output.
Author: Gilles Pujol, Bertrand Iooss, Alexandre Janon
Maintainer: Bertrand Iooss
sensitivity-1.6-1/sensitivity/LICENSE |only
sensitivity-1.7/sensitivity/DESCRIPTION | 18
sensitivity-1.7/sensitivity/MD5 | 22
sensitivity-1.7/sensitivity/NAMESPACE | 2
sensitivity-1.7/sensitivity/R/DMBRSI.R |only
sensitivity-1.7/sensitivity/R/morris.R | 411 ++++++++---------
sensitivity-1.7/sensitivity/R/sobolEff.R | 8
sensitivity-1.7/sensitivity/man/DMBRSI.Rd |only
sensitivity-1.7/sensitivity/man/sensitivity-package.Rd | 7
sensitivity-1.7/sensitivity/man/sobolCert.Rd | 3
sensitivity-1.7/sensitivity/src/Makevars | 2
sensitivity-1.7/sensitivity/src/as.cpp | 9
sensitivity-1.7/sensitivity/src/lbfgs-b.f | 3
sensitivity-1.7/sensitivity/test.R |only
14 files changed, 256 insertions(+), 229 deletions(-)
Title: Power and Sample size based on two one-sided t-tests (TOST) for
(bio)equivalence studies
Diff between PowerTOST versions 1.1-02 dated 2013-02-28 and 1.1-03 dated 2013-05-03
Description: Contains functions to calculate power and sample size for
various study designs used for bioequivalence studies. See
function known.designs() for study designs covered. Moreover
the package contains functions for power and sample size based
on 'expected' power in case of uncertain (estimated)
variability. ----- Added are functions for the power and
sample size for the ratio of two means with normally
distributed data on the original scale (based on Fieller's
confidence ('fiducial') interval). ----- Contains further
functions for power and sample size calculations based on
non-inferiority t-test. This is not a TOST procedure but
eventually useful if the question of 'non-superiority' must be
evaluated. The power and sample size calculations based on
non-inferiority test may also performed via 'expected' power in
case of uncertain (estimated) variability. ----- Contains
functions power.scABEL() and sampleN.scABEL() to calculate
power and sample size for the BE decision via scaled (widened)
BE acceptance limits based on simulations. Contains further
functions power.RSABE() and sampleN.RSABE() to calculate power
and sample size for the BE decision via reference scaled ABE
criterion according to the FDA procedure based on simulations.
Author: Detlew Labes
Maintainer: Detlew Labes
DESCRIPTION | 12 +
MD5 | 29 ++--
NEWS | 13 ++
R/helper.R | 14 +-
R/power_RSABE.R | 89 +++++++------
R/power_scABEL.R | 156 ++++++++++++------------
R/samplesize_RSABE.R | 54 ++++----
R/samplesize_scABEL.R | 97 ++++++--------
inst/doc/BE_power_sample_size_excerpt.pdf |binary
inst/doc/Implementation_scaledABE_simsV0.02.pdf |only
man/CVp2CV.Rd | 10 -
man/PowerTOST-package.Rd | 14 +-
man/power.RSABE.Rd | 17 --
man/power.scABEL.Rd | 38 +++--
man/sampleN.RSABE.Rd | 4
man/sampleN.scABEL.Rd | 16 +-
16 files changed, 291 insertions(+), 272 deletions(-)
Title: Estimation, simulation and visualization of Hierarchical
Archimedean Copulae (HAC)
Diff between HAC versions 0.2-6 dated 2012-12-22 and 0.2-7 dated 2013-05-03
Description: Package provides the estimation of the structure and the
parameters, sampling methods and structural plots of
high-dimensional Hierarchical Archimedean Copulae (HAC).
Author: Ostap Okhrin
Maintainer: Alexander Ristig
HAC-0.2-6/HAC/ChangeLog |only
HAC-0.2-7/HAC/DESCRIPTION | 11 ++--
HAC-0.2-7/HAC/MD5 | 36 ++++++++-----
HAC-0.2-7/HAC/R/aggregate.r | 10 +--
HAC-0.2-7/HAC/R/cdf.r | 8 +-
HAC-0.2-7/HAC/R/constructor.r | 14 ++---
HAC-0.2-7/HAC/R/empirical.r | 10 +--
HAC-0.2-7/HAC/R/estimate.r | 22 ++++----
HAC-0.2-7/HAC/R/functions.r | 30 +++++-----
HAC-0.2-7/HAC/R/pdf.r | 22 ++++----
HAC-0.2-7/HAC/R/plot.r | 26 ++++-----
HAC-0.2-7/HAC/R/simulate.r | 96 +++++++++++++++++------------------
HAC-0.2-7/HAC/R/tree2str.r | 34 ++++++------
HAC-0.2-7/HAC/data |only
HAC-0.2-7/HAC/inst |only
HAC-0.2-7/HAC/man/dHAC.Rd | 4 -
HAC-0.2-7/HAC/man/estimate.copula.Rd | 4 -
HAC-0.2-7/HAC/man/finData.Rd |only
HAC-0.2-7/HAC/vignettes |only
19 files changed, 169 insertions(+), 158 deletions(-)
Title: Diversity-dependent diversification
Diff between DDD versions 1.11 dated 2013-03-25 and 2.0 dated 2013-05-03
Description: DDD implements maximum likelihood methods based on the
diversity-dependent birth-death process to test whether
speciation or extinction are diversity-dependent. See Etienne
et al. 2012, Proc. Roy. Soc. B 279: 1300-1309, doi:
10.1098/rspb.2011.1439. DDD also implements a maximum
likelihood method to detect key innovations defined as
decoupling of diversity-dependence. See Etienne & Haegeman
2012, Am. Nat. 180: E75-E89, doi: 10.1086/667574.
Author: Rampal S. Etienne & Bart Haegeman
Maintainer: Rampal S. Etienne
DESCRIPTION | 10 ++++-----
MD5 | 39 ++++++++++++++++++++++--------------
R/L2phylo.R |only
R/bd_ML.R |only
R/bd_loglik.R |only
R/bd_loglik_choosepar.R |only
R/bd_simplex.R |only
R/dd_KI_ML.R | 6 +++--
R/dd_KI_loglik.R | 12 ++++++-----
R/dd_ML.R | 7 ++++--
R/dd_SR_ML.R | 7 ++++--
R/dd_SR_loglik.R | 19 +++++++++++------
R/dd_loglik.R | 51 +++++++++++++++++++++++++++++-------------------
R/dd_sim.R |only
man/DDD-internal.Rd | 3 ++
man/DDD-package.Rd | 22 ++++++++++++++++----
man/bd_ML.Rd |only
man/bd_loglik.Rd |only
man/dd_KI_ML.Rd | 7 ++++--
man/dd_KI_loglik.Rd | 6 +++--
man/dd_ML.Rd | 19 ++++++++++-------
man/dd_SR_ML.Rd | 8 +++++--
man/dd_SR_loglik.Rd | 9 +++++---
man/dd_loglik.Rd | 20 ++++++++++++------
man/dd_sim.Rd |only
25 files changed, 159 insertions(+), 86 deletions(-)
Title: Harrell Miscellaneous
Diff between Hmisc versions 3.10-1 dated 2012-10-25 and 3.10-1.1 dated 2013-05-03
Description: The Hmisc library contains many functions useful for data
analysis, high-level graphics, utility operations, functions
for computing sample size and power, importing datasets,
imputing missing values, advanced table making, variable
clustering, character string manipulation, conversion of S
objects to LaTeX code, and recoding variables. Please submit
bug reports to 'http://biostat.mc.vanderbilt.edu/trac/Hmisc'.
Author: Frank E Harrell Jr
Maintainer: Charles Dupont
DESCRIPTION | 7 ++++---
MD5 | 8 ++++----
man/hoeffd.Rd | 5 +----
src/hoeffd.f | 8 ++++----
src/rcorr.f | 10 +++++-----
5 files changed, 18 insertions(+), 20 deletions(-)
Title: Analysis of large Affymetrix microarray data sets
Diff between aroma.affymetrix versions 2.8.0 dated 2012-12-22 and 2.9.0 dated 2013-05-03
More information about aroma.affymetrix at CRAN
Description: This package implements classes for files and sets of
files for various Affymetrix file formats, e.g.
AffymetrixCdfFile, AffymetrixCelFile, and AffymetrixCelSet.
These are designed to be memory efficient but still being fast.
The idea is to keep all data on file and only read data into
memory when needed. Clever caching mechanisms are used to
minimize the overhead of data IO. All of the above is hidden
in the package API and for the developer (and the end user),
the data is queried as if it lives in memory. With this design
it is only the diskspace that limits the number of arrays that
can be analyzed. To install, do:
source("http://www.aroma-project.org/hbLite.R");
hbInstall("aroma.affymetrix").
Author: Henrik Bengtsson, James Bullard, Kasper Hansen, Pierre Neuvial,
Elizabeth Purdom, Mark Robinson, Ken Simpson
Maintainer: Henrik Bengtsson
aroma.affymetrix-2.8.0/aroma.affymetrix/R/AffymetrixCelSet.extractSnpFeatureSet.R |only
aroma.affymetrix-2.8.0/aroma.affymetrix/incl |only
aroma.affymetrix-2.8.0/aroma.affymetrix/inst/testScripts/replication/chipTypes/HG-U133_Plus_2/oligo,fitPLM.Rhide |only
aroma.affymetrix-2.8.0/aroma.affymetrix/inst/testScripts/system/chipTypes/HG-U133_Plus_2/11.doRMA,extractForBioC.R |only
aroma.affymetrix-2.8.0/aroma.affymetrix/man/doFIRMA.AffymetrixCelSet.Rd |only
aroma.affymetrix-2.9.0/aroma.affymetrix/DESCRIPTION | 15
aroma.affymetrix-2.9.0/aroma.affymetrix/MD5 | 1052 +--
aroma.affymetrix-2.9.0/aroma.affymetrix/R/006.fixVarArgs.R | 7
aroma.affymetrix-2.9.0/aroma.affymetrix/R/999.DEPRECATED.R | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/R/999.NonDocumentedObjects.R | 12
aroma.affymetrix-2.9.0/aroma.affymetrix/R/999.package.R | 22
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ASCRMAv2.R | 5
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffineCnPlm.R | 10
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffinePlm.R | 32
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffineSnpPlm.R | 9
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.COUNTS.R | 20
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.MONOCELL.R | 44
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.R | 134
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.SNPs.R | 21
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.UNIQUE.R | 44
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.computeAffinities.R | 66
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.getAlleleCellPairs.R | 12
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.getAlleleProbePairs.R | 22
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.getAlleleProbePairs3.R | 12
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.getCellQuartets.R | 8
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCdfFile.groupUnitsByDimension.R | 6
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelFile.BG.R | 66
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelFile.PLOT.R | 120
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelFile.R | 114
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelFile.allocateFromCdf.R | 8
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelFile.createFrom.R | 48
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelFile.fitQuantileNormFcn.R | 8
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelFile.normalizeQuantile.R | 12
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.BG.R | 26
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.NORM.R | 60
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.PLOT.R | 22
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.R | 156
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.convertToUnique.R | 35
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.extractAffyBatch.R | 11
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.extractFeatureSet.R |only
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.extractMatrix.R | 14
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.getAverageFile.R | 34
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.importFromDChip.R | 12
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.justSNPRMA.R | 14
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSet.writeSgr.R | 26
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSetReporter.R | 10
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCelSetTuple.R | 20
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCnChpFile.R | 43
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCnChpSet.R | 58
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCsvFile.R | 1
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixCsvGenomeInformation.R | 7
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixFile.R | 16
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixFileSet.R | 16
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixFileSetReporter.R | 6
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixNetAffxCsvFile.R | 25
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixPgfFile.R | 34
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixPlatform.R | 1
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixProbeTabFile.R | 68
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixTabularFile.R | 5
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AffymetrixTsvFile.R | 9
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AlleleSummation.R | 33
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AllelicCrosstalkCalibration.R | 156
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaCellCpgFile.AFFX.R | 3
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaCellMatchScoreFile.AFFX.R | 3
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaCellMatchScoreFile.R | 24
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaCellMatchScoreFile.importFromBpmap.R | 7
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaCellPositionFile.AFFX.R | 3
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaCellSequenceFile.AFFX.R | 47
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaCellSequenceFile.importFromBpmap.R | 5
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaChipTypeAnnotationFile.R | 28
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaPipeline.R | 1
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaUfcFile.R | 21
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AromaUnitTabularBinaryFile.AFFX.R | 32
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ArrayExplorer.R | 26
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AvgCnPlm.R | 10
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AvgPlm.R | 39
aroma.affymetrix-2.9.0/aroma.affymetrix/R/AvgSnpPlm.R | 6
aroma.affymetrix-2.9.0/aroma.affymetrix/R/BackgroundCorrection.R | 2
aroma.affymetrix-2.9.0/aroma.affymetrix/R/BaseCountNormalization.R | 42
aroma.affymetrix-2.9.0/aroma.affymetrix/R/BasePositionNormalization.R | 30
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectFile.R | 104
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectFile.fromDataFile.R | 8
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectFile.xam.R | 32
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectGroupMerge.R | 36
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectSet.PLOT.R | 1
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectSet.R | 18
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectSet.calculateBaseline.R | 54
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectSet.extractExpressionSet.R | 108
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectSet.getBaseline.R | 4
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectSet.xam.R | 16
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ChipEffectTransform.R | 10
aroma.affymetrix-2.9.0/aroma.affymetrix/R/CnChipEffectFile.R | 22
aroma.affymetrix-2.9.0/aroma.affymetrix/R/CnChipEffectSet.R | 13
aroma.affymetrix-2.9.0/aroma.affymetrix/R/CnChipEffectSet.importFromApt.R | 24
aroma.affymetrix-2.9.0/aroma.affymetrix/R/CnChipEffectSet.importFromDChip.R | 34
aroma.affymetrix-2.9.0/aroma.affymetrix/R/CnPlm.R | 38
aroma.affymetrix-2.9.0/aroma.affymetrix/R/CnProbeAffinityFile.R | 9
aroma.affymetrix-2.9.0/aroma.affymetrix/R/CnagCfhFile.R | 32
aroma.affymetrix-2.9.0/aroma.affymetrix/R/CnagCfhSet.R | 110
aroma.affymetrix-2.9.0/aroma.affymetrix/R/CrlmmParametersFile.R | 10
aroma.affymetrix-2.9.0/aroma.affymetrix/R/CrlmmParametersSet.R | 14
aroma.affymetrix-2.9.0/aroma.affymetrix/R/DChipCdfBinFile.R | 20
aroma.affymetrix-2.9.0/aroma.affymetrix/R/DChipDcpFile.R | 28
aroma.affymetrix-2.9.0/aroma.affymetrix/R/DChipDcpSet.R | 36
aroma.affymetrix-2.9.0/aroma.affymetrix/R/DChipGenomeInformation.R | 56
aroma.affymetrix-2.9.0/aroma.affymetrix/R/DChipQuantileNormalization.R | 48
aroma.affymetrix-2.9.0/aroma.affymetrix/R/DChipSnpInformation.R | 44
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ExonChipEffectFile.R | 48
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ExonChipEffectSet.R | 5
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ExonProbeAffinityFile.R | 11
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ExonRmaPlm.R | 44
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ExonRmaPlm.calculateWeights.R | 28
aroma.affymetrix-2.9.0/aroma.affymetrix/R/FirmaFile.R | 26
aroma.affymetrix-2.9.0/aroma.affymetrix/R/FirmaModel.R | 53
aroma.affymetrix-2.9.0/aroma.affymetrix/R/FirmaSet.R | 10
aroma.affymetrix-2.9.0/aroma.affymetrix/R/FragmentEquivalentClassNormalization.R | 68
aroma.affymetrix-2.9.0/aroma.affymetrix/R/FragmentLengthNormalization.R | 88
aroma.affymetrix-2.9.0/aroma.affymetrix/R/GcContentNormalization.R | 26
aroma.affymetrix-2.9.0/aroma.affymetrix/R/GcContentNormalization2.R | 14
aroma.affymetrix-2.9.0/aroma.affymetrix/R/GcRmaBackgroundCorrection.R | 19
aroma.affymetrix-2.9.0/aroma.affymetrix/R/GenericReporter.R | 19
aroma.affymetrix-2.9.0/aroma.affymetrix/R/GenomeInformation.AFFX.R | 20
aroma.affymetrix-2.9.0/aroma.affymetrix/R/GenomeInformation.R | 40
aroma.affymetrix-2.9.0/aroma.affymetrix/R/HetLogAddCnPlm.R | 11
aroma.affymetrix-2.9.0/aroma.affymetrix/R/HetLogAddPlm.R | 8
aroma.affymetrix-2.9.0/aroma.affymetrix/R/HetLogAddSnpPlm.R | 9
aroma.affymetrix-2.9.0/aroma.affymetrix/R/LimmaBackgroundCorrection.R | 32
aroma.affymetrix-2.9.0/aroma.affymetrix/R/LinearModelProbeSequenceNormalization.R | 60
aroma.affymetrix-2.9.0/aroma.affymetrix/R/MatNormalization.R | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/R/MatSmoothing.R | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/R/MbeiCnPlm.R | 8
aroma.affymetrix-2.9.0/aroma.affymetrix/R/MbeiPlm.R | 62
aroma.affymetrix-2.9.0/aroma.affymetrix/R/MbeiSnpPlm.R | 6
aroma.affymetrix-2.9.0/aroma.affymetrix/R/Model.R | 39
aroma.affymetrix-2.9.0/aroma.affymetrix/R/MultiArrayUnitModel.R | 22
aroma.affymetrix-2.9.0/aroma.affymetrix/R/NormExpBackgroundCorrection.R | 3
aroma.affymetrix-2.9.0/aroma.affymetrix/R/OpticalBackgroundCorrection.R | 6
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ParameterCelFile.R | 22
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ParameterCelSet.R | 32
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ProbeAffinityFile.R | 12
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ProbeLevelModel.R | 56
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ProbeLevelModel.calculateResiduals.R | 37
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ProbeLevelModel.calculateWeights.R | 28
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ProbeLevelModel.fit.R | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ProbeLevelTransform.R | 10
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ProbeLevelTransform3.R | 26
aroma.affymetrix-2.9.0/aroma.affymetrix/R/QualityAssessmentFile.R | 11
aroma.affymetrix-2.9.0/aroma.affymetrix/R/QualityAssessmentModel.R | 52
aroma.affymetrix-2.9.0/aroma.affymetrix/R/QualityAssessmentSet.R | 6
aroma.affymetrix-2.9.0/aroma.affymetrix/R/QuantileNormalization.R | 48
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ReseqCrosstalkCalibration.R | 64
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ResidualFile.R | 48
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ResidualSet.R | 16
aroma.affymetrix-2.9.0/aroma.affymetrix/R/RmaBackgroundCorrection.R | 4
aroma.affymetrix-2.9.0/aroma.affymetrix/R/RmaCnPlm.R | 9
aroma.affymetrix-2.9.0/aroma.affymetrix/R/RmaPlm.R | 102
aroma.affymetrix-2.9.0/aroma.affymetrix/R/RmaSnpPlm.R | 13
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ScaleNormalization.R | 58
aroma.affymetrix-2.9.0/aroma.affymetrix/R/ScaleNormalization3.R | 42
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SingleArrayUnitModel.R | 16
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SingleArrayUnitModel.fit.R | 16
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SmoothMultiarrayModel.R | 8
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SmoothMultiarrayModel.fit.R | 32
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SmoothRmaModel.R | 6
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SmoothSaModel.R | 8
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SnpChipEffectFile.R | 26
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SnpChipEffectGroupMerge.R | 14
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SnpChipEffectSet.R | 15
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SnpInformation.R | 30
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SnpPlm.R | 10
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SnpProbeAffinityFile.R | 9
aroma.affymetrix-2.9.0/aroma.affymetrix/R/SpatialReporter.R | 51
aroma.affymetrix-2.9.0/aroma.affymetrix/R/Transform.R | 14
aroma.affymetrix-2.9.0/aroma.affymetrix/R/TransformReport.R | 52
aroma.affymetrix-2.9.0/aroma.affymetrix/R/UgpGenomeInformation.R | 22
aroma.affymetrix-2.9.0/aroma.affymetrix/R/UnitModel.R | 25
aroma.affymetrix-2.9.0/aroma.affymetrix/R/UnitTypeScaleNormalization.R | 50
aroma.affymetrix-2.9.0/aroma.affymetrix/R/WeightsFile.R | 42
aroma.affymetrix-2.9.0/aroma.affymetrix/R/WeightsSet.R | 14
aroma.affymetrix-2.9.0/aroma.affymetrix/R/doCRMAv1.R | 120
aroma.affymetrix-2.9.0/aroma.affymetrix/R/doCRMAv2.R | 121
aroma.affymetrix-2.9.0/aroma.affymetrix/R/doFIRMA.R | 70
aroma.affymetrix-2.9.0/aroma.affymetrix/R/doGCRMA.R | 139
aroma.affymetrix-2.9.0/aroma.affymetrix/R/doRMA.R | 133
aroma.affymetrix-2.9.0/aroma.affymetrix/R/dropCellsFromCdfList.R | 15
aroma.affymetrix-2.9.0/aroma.affymetrix/R/plotBoxplotStats.list.R | 8
aroma.affymetrix-2.9.0/aroma.affymetrix/R/zzz.R | 11
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/NEWS | 728 +-
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/testScripts/BatchJobs |only
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/testScripts/setup/launch-addons.sh |only
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/testScripts/setup/launch-replication.sh |only
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/testScripts/setup/launch-system.sh |only
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/testScripts/system/chipTypes/HG-U133_Plus_2/01c.installPackages.R | 4
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/testScripts/system/chipTypes/HG-U133_Plus_2/12.doGCRMA.R | 3
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/testScripts/system/chipTypes/HG-U133_Plus_2/81.doRMA,extractAffyBatch.R |only
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/testScripts/system/chipTypes/HG-U133_Plus_2/81.doRMA,extractExpressionSet.R |only
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/testScripts/system/chipTypes/HuEx-1_0-st-v2/21.doFIRMA,extras.R | 4
aroma.affymetrix-2.9.0/aroma.affymetrix/inst/testScripts/system/chipTypes/Mapping10K_Xba142/10.CDF,readDataFrame.R |only
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AbstractProbeSequenceNormalization.Rd | 188
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AdditiveCovariatesNormalization.Rd | 198
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffineCnPlm.Rd | 198
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffinePlm.Rd | 216
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffineSnpPlm.Rd | 178
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixCdfFile.Rd | 262
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixCelFile.Rd | 244
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixCelSet.Rd | 278
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixCelSetReporter.Rd | 130
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixCelSetTuple.Rd | 142
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixCnChpSet.Rd | 186
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixFile.Rd | 184
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixFileSet.Rd | 160
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixFileSetReporter.Rd | 124
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixPgfFile.Rd | 248
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AffymetrixProbeTabFile.Rd | 246
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AlleleSummation.Rd | 156
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AllelicCrosstalkCalibration.Rd | 270
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AromaChipTypeAnnotationFile.Rd | 184
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ArrayExplorer.Rd | 134
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AvgCnPlm.Rd | 198
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AvgPlm.Rd | 218
aroma.affymetrix-2.9.0/aroma.affymetrix/man/AvgSnpPlm.Rd | 178
aroma.affymetrix-2.9.0/aroma.affymetrix/man/BackgroundCorrection.Rd | 162
aroma.affymetrix-2.9.0/aroma.affymetrix/man/BaseCountNormalization.Rd | 192
aroma.affymetrix-2.9.0/aroma.affymetrix/man/BasePositionNormalization.Rd | 190
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ChipEffectFile.Rd | 228
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ChipEffectGroupMerge.Rd | 172
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ChipEffectSet.Rd | 222
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ChipEffectTransform.Rd | 150
aroma.affymetrix-2.9.0/aroma.affymetrix/man/CnChipEffectFile.Rd | 262
aroma.affymetrix-2.9.0/aroma.affymetrix/man/CnChipEffectSet.Rd | 244
aroma.affymetrix-2.9.0/aroma.affymetrix/man/CnPlm.Rd | 176
aroma.affymetrix-2.9.0/aroma.affymetrix/man/CnProbeAffinityFile.Rd | 226
aroma.affymetrix-2.9.0/aroma.affymetrix/man/CnagCfhFile.Rd | 192
aroma.affymetrix-2.9.0/aroma.affymetrix/man/CnagCfhSet.Rd | 166
aroma.affymetrix-2.9.0/aroma.affymetrix/man/CrlmmParametersFile.Rd | 208
aroma.affymetrix-2.9.0/aroma.affymetrix/man/CrlmmParametersSet.Rd | 170
aroma.affymetrix-2.9.0/aroma.affymetrix/man/DChipCdfBinFile.Rd | 214
aroma.affymetrix-2.9.0/aroma.affymetrix/man/DChipDcpFile.Rd | 212
aroma.affymetrix-2.9.0/aroma.affymetrix/man/DChipDcpSet.Rd | 186
aroma.affymetrix-2.9.0/aroma.affymetrix/man/DChipGenomeInformation.Rd | 194
aroma.affymetrix-2.9.0/aroma.affymetrix/man/DChipQuantileNormalization.Rd | 192
aroma.affymetrix-2.9.0/aroma.affymetrix/man/DChipSnpInformation.Rd | 196
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ExonChipEffectFile.Rd | 228
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ExonChipEffectSet.Rd | 214
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ExonProbeAffinityFile.Rd | 218
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ExonRmaPlm.Rd | 210
aroma.affymetrix-2.9.0/aroma.affymetrix/man/FirmaFile.Rd | 218
aroma.affymetrix-2.9.0/aroma.affymetrix/man/FirmaModel.Rd | 164
aroma.affymetrix-2.9.0/aroma.affymetrix/man/FirmaSet.Rd | 198
aroma.affymetrix-2.9.0/aroma.affymetrix/man/FragmentEquivalentClassNormalization.Rd | 200
aroma.affymetrix-2.9.0/aroma.affymetrix/man/FragmentLengthNormalization.Rd | 220
aroma.affymetrix-2.9.0/aroma.affymetrix/man/GcContentNormalization.Rd | 170
aroma.affymetrix-2.9.0/aroma.affymetrix/man/GcContentNormalization2.Rd | 166
aroma.affymetrix-2.9.0/aroma.affymetrix/man/GcRmaBackgroundCorrection.Rd | 204
aroma.affymetrix-2.9.0/aroma.affymetrix/man/GenericReporter.Rd | 120
aroma.affymetrix-2.9.0/aroma.affymetrix/man/GenomeInformation.Rd | 168
aroma.affymetrix-2.9.0/aroma.affymetrix/man/HetLogAddCnPlm.Rd | 216
aroma.affymetrix-2.9.0/aroma.affymetrix/man/HetLogAddPlm.Rd | 180
aroma.affymetrix-2.9.0/aroma.affymetrix/man/HetLogAddSnpPlm.Rd | 188
aroma.affymetrix-2.9.0/aroma.affymetrix/man/LimmaBackgroundCorrection.Rd | 214
aroma.affymetrix-2.9.0/aroma.affymetrix/man/LinearModelProbeSequenceNormalization.Rd | 204
aroma.affymetrix-2.9.0/aroma.affymetrix/man/MatNormalization.Rd | 210
aroma.affymetrix-2.9.0/aroma.affymetrix/man/MatSmoothing.Rd | 162
aroma.affymetrix-2.9.0/aroma.affymetrix/man/MbeiCnPlm.Rd | 198
aroma.affymetrix-2.9.0/aroma.affymetrix/man/MbeiPlm.Rd | 202
aroma.affymetrix-2.9.0/aroma.affymetrix/man/MbeiSnpPlm.Rd | 178
aroma.affymetrix-2.9.0/aroma.affymetrix/man/Model.Rd | 144
aroma.affymetrix-2.9.0/aroma.affymetrix/man/MultiArrayUnitModel.Rd | 158
aroma.affymetrix-2.9.0/aroma.affymetrix/man/Non-documented_objects.Rd | 2855 ++++------
aroma.affymetrix-2.9.0/aroma.affymetrix/man/NormExpBackgroundCorrection.Rd | 184
aroma.affymetrix-2.9.0/aroma.affymetrix/man/OpticalBackgroundCorrection.Rd | 166
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ParameterCelFile.Rd | 252
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ParameterCelSet.Rd | 190
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ProbeAffinityFile.Rd | 218
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ProbeLevelModel.Rd | 220
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ProbeLevelTransform.Rd | 148
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ProbeLevelTransform3.Rd | 170
aroma.affymetrix-2.9.0/aroma.affymetrix/man/QualityAssessmentFile.Rd | 194
aroma.affymetrix-2.9.0/aroma.affymetrix/man/QualityAssessmentModel.Rd | 136
aroma.affymetrix-2.9.0/aroma.affymetrix/man/QualityAssessmentSet.Rd | 168
aroma.affymetrix-2.9.0/aroma.affymetrix/man/QuantileNormalization.Rd | 244
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ReseqCrosstalkCalibration.Rd | 180
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ResidualFile.Rd | 226
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ResidualSet.Rd | 200
aroma.affymetrix-2.9.0/aroma.affymetrix/man/RmaBackgroundCorrection.Rd | 200
aroma.affymetrix-2.9.0/aroma.affymetrix/man/RmaCnPlm.Rd | 206
aroma.affymetrix-2.9.0/aroma.affymetrix/man/RmaPlm.Rd | 238
aroma.affymetrix-2.9.0/aroma.affymetrix/man/RmaSnpPlm.Rd | 178
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ScaleNormalization.Rd | 186
aroma.affymetrix-2.9.0/aroma.affymetrix/man/ScaleNormalization3.Rd | 168
aroma.affymetrix-2.9.0/aroma.affymetrix/man/SingleArrayUnitModel.Rd | 148
aroma.affymetrix-2.9.0/aroma.affymetrix/man/SmoothMultiarrayModel.Rd | 144
aroma.affymetrix-2.9.0/aroma.affymetrix/man/SmoothRmaModel.Rd | 132
aroma.affymetrix-2.9.0/aroma.affymetrix/man/SnpChipEffectFile.Rd | 232
aroma.affymetrix-2.9.0/aroma.affymetrix/man/SnpChipEffectGroupMerge.Rd | 178
aroma.affymetrix-2.9.0/aroma.affymetrix/man/SnpChipEffectSet.Rd | 220
aroma.affymetrix-2.9.0/aroma.affymetrix/man/SnpInformation.Rd | 164
aroma.affymetrix-2.9.0/aroma.affymetrix/man/SnpPlm.Rd | 336 -
aroma.affymetrix-2.9.0/aroma.affymetrix/man/SnpProbeAffinityFile.Rd | 216
aroma.affymetrix-2.9.0/aroma.affymetrix/man/SpatialReporter.Rd | 154
aroma.affymetrix-2.9.0/aroma.affymetrix/man/TransformReport.Rd | 142
aroma.affymetrix-2.9.0/aroma.affymetrix/man/UgpGenomeInformation.Rd | 180
aroma.affymetrix-2.9.0/aroma.affymetrix/man/UnitModel.Rd | 146
aroma.affymetrix-2.9.0/aroma.affymetrix/man/UnitTypeScaleNormalization.Rd | 168
aroma.affymetrix-2.9.0/aroma.affymetrix/man/WeightsFile.Rd | 228
aroma.affymetrix-2.9.0/aroma.affymetrix/man/WeightsSet.Rd | 200
aroma.affymetrix-2.9.0/aroma.affymetrix/man/allocateFromCdf.AffymetrixCelFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/allocateFromCdf.AromaUnitTabularBinaryFile.Rd | 106
aroma.affymetrix-2.9.0/aroma.affymetrix/man/aroma.affymetrix-package.Rd | 144
aroma.affymetrix-2.9.0/aroma.affymetrix/man/as.AffymetrixCelSet.AffymetrixCelSet.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/as.AffymetrixCnChpSet.AffymetrixCnChpSet.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/as.AffymetrixFileSet.AffymetrixFileSet.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/as.CnagCfhSet.CnagCfhSet.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/as.DChipDcpSet.DChipDcpSet.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/as.character.AffymetrixCelSet.Rd | 86
aroma.affymetrix-2.9.0/aroma.affymetrix/man/as.character.AffymetrixCnChpSet.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/as.character.CnagCfhSet.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/as.character.DChipDcpSet.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/averageQuantile.AffymetrixCelSet.Rd | 124
aroma.affymetrix-2.9.0/aroma.affymetrix/man/bgAdjustGcrma.AffymetrixCelFile.Rd | 134
aroma.affymetrix-2.9.0/aroma.affymetrix/man/bgAdjustGcrma.AffymetrixCelSet.Rd | 134
aroma.affymetrix-2.9.0/aroma.affymetrix/man/bgAdjustOptical.AffymetrixCelFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/bgAdjustRma.AffymetrixCelFile.Rd | 96
aroma.affymetrix-2.9.0/aroma.affymetrix/man/bpmapCluster2Cdf.Rd | 154
aroma.affymetrix-2.9.0/aroma.affymetrix/man/byChipType.AromaChipTypeAnnotationFile.Rd | 106
aroma.affymetrix-2.9.0/aroma.affymetrix/man/byChipType.DChipGenomeInformation.Rd | 94
aroma.affymetrix-2.9.0/aroma.affymetrix/man/byChipType.DChipSnpInformation.Rd | 102
aroma.affymetrix-2.9.0/aroma.affymetrix/man/byChipType.GenomeInformation.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/byChipType.SnpInformation.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/byChipType.UgpGenomeInformation.Rd | 102
aroma.affymetrix-2.9.0/aroma.affymetrix/man/byPath.AffymetrixFileSet.Rd | 102
aroma.affymetrix-2.9.0/aroma.affymetrix/man/calculateBaseline.ChipEffectSet.Rd | 94
aroma.affymetrix-2.9.0/aroma.affymetrix/man/calculateParametersGsb.AffymetrixCelSet.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/calculateResidualSet.FirmaModel.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/clearData.AffymetrixCelFile.Rd | 100
aroma.affymetrix-2.9.0/aroma.affymetrix/man/compare.AffymetrixCdfFile.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/computeAffinities.AffymetrixCdfFile.Rd | 90
aroma.affymetrix-2.9.0/aroma.affymetrix/man/convert.AffymetrixCdfFile.Rd | 94
aroma.affymetrix-2.9.0/aroma.affymetrix/man/convertUnits.AffymetrixCdfFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/createExonByTranscriptCdf.AffymetrixCdfFile.Rd | 222
aroma.affymetrix-2.9.0/aroma.affymetrix/man/createFrom.AffymetrixCelFile.Rd | 108
aroma.affymetrix-2.9.0/aroma.affymetrix/man/createMonocellCdf.AffymetrixCdfFile.Rd | 108
aroma.affymetrix-2.9.0/aroma.affymetrix/man/createUniqueCdf.AffymetrixCdfFile.Rd | 130
aroma.affymetrix-2.9.0/aroma.affymetrix/man/doCRMAv1.Rd |only
aroma.affymetrix-2.9.0/aroma.affymetrix/man/doCRMAv2.Rd |only
aroma.affymetrix-2.9.0/aroma.affymetrix/man/doFIRMA.Rd |only
aroma.affymetrix-2.9.0/aroma.affymetrix/man/doGCRMA.Rd |only
aroma.affymetrix-2.9.0/aroma.affymetrix/man/doRMA.Rd |only
aroma.affymetrix-2.9.0/aroma.affymetrix/man/extractAffyBatch.AffymetrixCelSet.Rd | 113
aroma.affymetrix-2.9.0/aroma.affymetrix/man/extractDataFrame.ParameterCelSet.Rd | 104
aroma.affymetrix-2.9.0/aroma.affymetrix/man/extractExpressionSet.ChipEffectSet.Rd | 107
aroma.affymetrix-2.9.0/aroma.affymetrix/man/extractFeatureSet.AffymetrixCelSet.Rd |only
aroma.affymetrix-2.9.0/aroma.affymetrix/man/extractMatrix.AffymetrixCelSet.Rd | 96
aroma.affymetrix-2.9.0/aroma.affymetrix/man/extractMatrix.ParameterCelSet.Rd | 100
aroma.affymetrix-2.9.0/aroma.affymetrix/man/findByChipType.AffymetrixCdfFile.Rd | 102
aroma.affymetrix-2.9.0/aroma.affymetrix/man/findByChipType.AffymetrixPgfFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/findByChipType.AromaChipTypeAnnotationFile.Rd | 92
aroma.affymetrix-2.9.0/aroma.affymetrix/man/findUnitsTodo.FirmaModel.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/findUnitsTodo.ProbeLevelModel.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/findUnitsTodo.UnitModel.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fit.FirmaModel.Rd | 168
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fit.Model.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fit.ProbeLevelModel.Rd | 172
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fit.SingleArrayUnitModel.Rd | 142
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fit.SmoothMultiarrayModel.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fitQuantileNormFcn.AffymetrixCelFile.Rd | 90
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fromCdf.GenomeInformation.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fromCdf.SnpInformation.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fromDataFile.ChipEffectFile.Rd | 102
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fromFile.AffymetrixCdfFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fromFile.AffymetrixCelFile.Rd | 100
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fromFile.AffymetrixPgfFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fromFile.AromaChipTypeAnnotationFile.Rd | 100
aroma.affymetrix-2.9.0/aroma.affymetrix/man/fromFile.CnagCfhFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getAM.ChipEffectFile.Rd | 96
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getAM.ChipEffectSet.Rd | 96
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getAlias.GenericReporter.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getAlias.Model.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getAlleleCellPairs.AffymetrixCdfFile.Rd | 92
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getAlleleProbePairs.AffymetrixCdfFile.Rd | 104
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getAlleleProbePairs3.AffymetrixCdfFile.Rd | 104
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getAverageFile.AffymetrixCelSet.Rd | 138
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getAverageFile.CnagCfhSet.Rd | 134
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getBaseline.ChipEffectSet.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCdf.AffymetrixCelFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCdf.AffymetrixCelSet.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCdf.CnagCfhFile.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCdf.CnagCfhSet.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCdf.Model.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.AffymetrixCdfFile.Rd | 116
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.ChipEffectFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.CnChipEffectFile.Rd | 96
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.CnProbeAffinityFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.ExonChipEffectFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.ExonProbeAffinityFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.FirmaFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.ProbeAffinityFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.ResidualFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.SnpChipEffectFile.Rd | 96
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.SnpProbeAffinityFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.UnitModel.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCellIndices.WeightsFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getChipEffectSet.AlleleSummation.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getChipEffectSet.ProbeLevelModel.Rd | 88
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getChipType.AffymetrixCelFile.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getChipType.AffymetrixCelSet.Rd | 86
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getChipType.CnagCfhFile.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getChipType.GenomeInformation.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getChipType.SnpInformation.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getCnNames.AffymetrixCdfFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getData.GenomeInformation.Rd | 90
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getData.SnpInformation.Rd | 88
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getDataSet.AffymetrixCelSetReporter.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getDataSet.ArrayExplorer.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getDataSet.Model.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFirmaSet.FirmaModel.Rd | 86
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFitUnitGroupFunction.AffinePlm.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFitUnitGroupFunction.AvgPlm.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFitUnitGroupFunction.ExonRmaPlm.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFitUnitGroupFunction.FirmaModel.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFitUnitGroupFunction.HetLogAddPlm.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFitUnitGroupFunction.MbeiPlm.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFitUnitGroupFunction.MultiArrayUnitModel.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFitUnitGroupFunction.RmaPlm.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFitUnitGroupFunction.SingleArrayUnitModel.Rd | 86
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFullName.Model.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getFullName.TransformReport.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getGenomeInformation.AffymetrixCdfFile.Rd | 146
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getHeader.AffymetrixCdfFile.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getHeader.AffymetrixCelFile.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getHeader.AffymetrixPgfFile.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getHeader.AromaChipTypeAnnotationFile.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getHeader.CnagCfhFile.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getImage.AffymetrixCelFile.Rd | 118
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getInputDataSet.TransformReport.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getIntensities.AffymetrixCelSet.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getName.GenericReporter.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getName.Model.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getName.TransformReport.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getOutputDataSet.Transform.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getOutputDataSet.TransformReport.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getPath.Model.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getPath.TransformReport.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getPositions.GenomeInformation.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getProbeAffinityFile.ProbeLevelModel.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getResiduals.QualityAssessmentModel.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getRootPath.Model.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getSnpNames.AffymetrixCdfFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getTags.GenericReporter.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getTags.Model.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getTags.TransformReport.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getTimestamp.AffymetrixCelFile.Rd | 92
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getUnitGroupCellMap.ChipEffectFile.Rd | 112
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getUnitIndices.GenomeInformation.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getUnitIntensities.AffymetrixCelSet.Rd | 92
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getUnitNames.AffymetrixCdfFile.Rd | 92
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getUnitNames.AffymetrixPgfFile.Rd | 92
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getUnitTypes.AffymetrixCdfFile.Rd | 94
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getWeights.QualityAssessmentModel.Rd | 86
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getXAM.ChipEffectFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/getXAM.ChipEffectSet.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/groupUnitsByDimension.AffymetrixCdfFile.Rd | 88
aroma.affymetrix-2.9.0/aroma.affymetrix/man/image270.AffymetrixCelFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/importFromApt.CnChipEffectSet.Rd | 124
aroma.affymetrix-2.9.0/aroma.affymetrix/man/importFromDChip.AffymetrixCelSet.Rd | 128
aroma.affymetrix-2.9.0/aroma.affymetrix/man/importFromDChip.CnChipEffectSet.Rd | 126
aroma.affymetrix-2.9.0/aroma.affymetrix/man/isDuplicated.AffymetrixCelSet.Rd | 88
aroma.affymetrix-2.9.0/aroma.affymetrix/man/isDuplicated.CnagCfhSet.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/isPm.AffymetrixCdfFile.Rd | 104
aroma.affymetrix-2.9.0/aroma.affymetrix/man/isResequenceChip.AffymetrixCdfFile.Rd | 88
aroma.affymetrix-2.9.0/aroma.affymetrix/man/isSnpChip.AffymetrixCdfFile.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/nbrOfArrays.AffymetrixCelSet.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/nbrOfArrays.AffymetrixCnChpSet.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/nbrOfArrays.CnagCfhSet.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/nbrOfArrays.DChipDcpSet.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/nbrOfGroupsPerUnit.AffymetrixCdfFile.Rd | 106
aroma.affymetrix-2.9.0/aroma.affymetrix/man/nbrOfSnps.AffymetrixCdfFile.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/normalizeQuantile.AffymetrixCelFile.Rd | 104
aroma.affymetrix-2.9.0/aroma.affymetrix/man/normalizeQuantile.AffymetrixCelSet.Rd | 118
aroma.affymetrix-2.9.0/aroma.affymetrix/man/pdInfo2Cdf.Rd | 134
aroma.affymetrix-2.9.0/aroma.affymetrix/man/plotBoxplotStats.list.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/plotDensity.AffymetrixCelFile.Rd | 110
aroma.affymetrix-2.9.0/aroma.affymetrix/man/plotDensity.AffymetrixCelSet.Rd | 110
aroma.affymetrix-2.9.0/aroma.affymetrix/man/plotDensity.GenomeInformation.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/plotImage.AffymetrixCelFile.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/plotMvsA.AffymetrixCelFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/plotMvsX.AffymetrixCelFile.Rd | 100
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.AbstractProbeSequenceNormalization.Rd | 86
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.AdditiveCovariatesNormalization.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.AllelicCrosstalkCalibration.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.ArrayExplorer.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.BackgroundCorrection.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.ChipEffectGroupMerge.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.DChipQuantileNormalization.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.FragmentEquivalentClassNormalization.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.FragmentLengthNormalization.Rd | 82
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.GcContentNormalization.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.GcRmaBackgroundCorrection.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.GenericReporter.Rd | 74
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.LimmaBackgroundCorrection.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.MatNormalization.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.MatSmoothing.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.OpticalBackgroundCorrection.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.QuantileNormalization.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.ReseqCrosstalkCalibration.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.RmaBackgroundCorrection.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.ScaleNormalization.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.ScaleNormalization3.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.SpatialReporter.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/process.UnitTypeScaleNormalization.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/readRawData.AffymetrixCelFile.Rd | 110
aroma.affymetrix-2.9.0/aroma.affymetrix/man/readUnits.AffymetrixCdfFile.Rd | 94
aroma.affymetrix-2.9.0/aroma.affymetrix/man/readUnits.AffymetrixCelFile.Rd | 102
aroma.affymetrix-2.9.0/aroma.affymetrix/man/readUnits.CnagCfhFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/readUnits.MultiArrayUnitModel.Rd | 92
aroma.affymetrix-2.9.0/aroma.affymetrix/man/readUnits.SingleArrayUnitModel.Rd | 92
aroma.affymetrix-2.9.0/aroma.affymetrix/man/readUnitsByQuartets.AffymetrixCdfFile.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/setAlias.GenericReporter.Rd | 88
aroma.affymetrix-2.9.0/aroma.affymetrix/man/setAlias.Model.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/setArrays.ArrayExplorer.Rd | 78
aroma.affymetrix-2.9.0/aroma.affymetrix/man/setCdf.AffymetrixCelFile.Rd | 88
aroma.affymetrix-2.9.0/aroma.affymetrix/man/setCdf.AffymetrixCelSet.Rd | 92
aroma.affymetrix-2.9.0/aroma.affymetrix/man/setCdf.CnagCfhFile.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/setCdf.CnagCfhSet.Rd | 84
aroma.affymetrix-2.9.0/aroma.affymetrix/man/setRestructor.AffymetrixCdfFile.Rd | 122
aroma.affymetrix-2.9.0/aroma.affymetrix/man/setTags.Model.Rd | 80
aroma.affymetrix-2.9.0/aroma.affymetrix/man/smoothScatterMvsA.AffymetrixCelFile.Rd | 98
aroma.affymetrix-2.9.0/aroma.affymetrix/man/updateUnits.AffymetrixCelFile.Rd | 88
aroma.affymetrix-2.9.0/aroma.affymetrix/man/verify.GenomeInformation.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/verify.SnpInformation.Rd | 76
aroma.affymetrix-2.9.0/aroma.affymetrix/man/writeCdf.AffyGenePDInfo.Rd | 140
aroma.affymetrix-2.9.0/aroma.affymetrix/man/writeImage.AffymetrixCelFile.Rd | 126
532 files changed, 25890 insertions(+), 25605 deletions(-)
Permanent link
Title: Bayesian monotonic nonparametric regression
Diff between bnpmr versions 1.0 dated 2013-04-25 and 1.1 dated 2013-05-03
Description: Implements the Bayesian nonparametric monotonic regression
method described in Bornkamp & Ickstadt (2009), Biometrics, 65,
198-205.
Author: Bjoern Bornkamp
Maintainer: Bjoern Bornkamp
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
man/bnpmr-package.Rd | 4 ++--
src/axl.cpp | 2 +-
src/npmr.cpp | 8 ++++----
5 files changed, 15 insertions(+), 15 deletions(-)