Title: Quality Assurance Toolkit
Diff between qat versions 0.72 dated 2013-06-18 and 0.73 dated 2014-09-15
Description: This package delivers some functions to provide a scientific quality assurance of meteorological data.
Author: Andre Duesterhus
Maintainer: Andre Duesterhus
qat-0.72/qat/ChangeLog.txt |only
qat-0.72/qat/inst/doc |only
qat-0.73/qat/ChangeLog |only
qat-0.73/qat/DESCRIPTION | 15 +--
qat-0.73/qat/MD5 | 90 +++++++++----------
qat-0.73/qat/NAMESPACE | 7 +
qat-0.73/qat/R/qat_add_algorithm.R | 2
qat-0.73/qat/R/qat_add_comment.R | 2
qat-0.73/qat/R/qat_add_description.R | 2
qat-0.73/qat/R/qat_add_resultfile.R | 2
qat-0.73/qat/R/qat_analyse_block_distribution_1d.R | 2
qat-0.73/qat/R/qat_analyse_block_distribution_2d.R | 2
qat-0.73/qat/R/qat_analyse_boot_distribution_1d.R | 4
qat-0.73/qat/R/qat_analyse_boot_distribution_2d.R | 4
qat-0.73/qat/R/qat_analyse_distribution_1d.R | 2
qat-0.73/qat/R/qat_analyse_distribution_2d.R | 2
qat-0.73/qat/R/qat_analyse_slide_distribution_1d.R | 2
qat-0.73/qat/R/qat_analyse_slide_distribution_2d.R | 2
qat-0.73/qat/R/qat_analyse_trimmed_distribution_1d.R | 2
qat-0.73/qat/R/qat_analyse_trimmed_distribution_2d.R | 2
qat-0.73/qat/R/qat_config_read_workflow.R | 2
qat-0.73/qat/R/qat_config_write_workflow.R | 2
qat-0.73/qat/R/qat_data_close_ncdf.R | 2
qat-0.73/qat/R/qat_data_read_ncdf.R | 2
qat-0.73/qat/R/qat_data_varcontent_ncdf.R | 2
qat-0.73/qat/R/qat_plot_block_distribution_1d.R | 2
qat-0.73/qat/R/qat_plot_block_distribution_2d.R | 4
qat-0.73/qat/R/qat_plot_boot_distribution_1d.R | 2
qat-0.73/qat/R/qat_plot_distribution_1d.R | 2
qat-0.73/qat/R/qat_plot_histogram_test.R | 4
qat-0.73/qat/R/qat_plot_lim_rule_dynamic_1d.R | 2
qat-0.73/qat/R/qat_plot_lim_rule_dynamic_2d.R | 2
qat-0.73/qat/R/qat_plot_lim_rule_sigma_2d.R | 2
qat-0.73/qat/R/qat_plot_lim_rule_static_2d.R | 2
qat-0.73/qat/R/qat_plot_noc_rule_2d.R | 2
qat-0.73/qat/R/qat_plot_roc_rule_dynamic_2d.R | 2
qat-0.73/qat/R/qat_plot_roc_rule_static_2d.R | 2
qat-0.73/qat/R/qat_plot_slide_distribution_1d.R | 2
qat-0.73/qat/R/qat_plot_slide_distribution_2d.R | 4
qat-0.73/qat/R/qat_plot_trimmed_distribution_1d.R | 2
qat-0.73/qat/R/qat_plot_trimmed_distribution_2d.R | 4
qat-0.73/qat/R/qat_read_parameter.R | 2
qat-0.73/qat/R/qat_run_workflow_check.R | 2
qat-0.73/qat/R/qat_run_workflow_save.R | 2
qat-0.73/qat/R/qat_save_result_ncdf.R | 2
qat-0.73/qat/inst/extdata/workflowexample.xml | 2
qat-0.73/qat/man/qat_style_plot.Rd | 2
47 files changed, 107 insertions(+), 99 deletions(-)
Title: Mark-Recapture Distance Sampling (mrds)
Diff between mrds versions 2.1.6 dated 2014-06-10 and 2.1.8 dated 2014-09-15
Description: This package implements mark-recapture distance sampling
methods as described in D.L. Borchers, W. Zucchini and Fewster,
R.M. (1988), "Mark-recapture models for line transect surveys",
Biometrics 54: 1207-1220. and Laake, J.L. (1999) "Distance sampling
with independent observers: Reducing bias from heterogeneity by
weakening the conditional independence assumption." in Amstrup,
G.W., Garner, S.C., Laake, J.L., Manly, B.F.J., McDonald, L.L. and
Robertson, D.G. (eds) "Marine mammal survey and assessment
methods", Balkema, Rotterdam: 137-148 and Borchers, D.L., Laake,
J.L., Southwell, C. and Paxton, C.L.G. "Accommodating unmodelled
heterogeneity in double-observer distance sampling surveys". 2006.
Biometrics 62:372-378.)
Author: Jeff Laake
Maintainer: David Miller
mrds-2.1.6/mrds/R/tablecgf.R |only
mrds-2.1.6/mrds/man/tablecgf.Rd |only
mrds-2.1.8/mrds/DESCRIPTION | 8
mrds-2.1.8/mrds/MD5 | 381 ++++++++++----------
mrds-2.1.8/mrds/NAMESPACE | 5
mrds-2.1.8/mrds/NEWS | 30 +
mrds-2.1.8/mrds/R/adj.check.order.R | 2
mrds-2.1.8/mrds/R/cdf.ds.R | 77 ----
mrds-2.1.8/mrds/R/check.bounds.R | 2
mrds-2.1.8/mrds/R/check.mono.R | 27 -
mrds-2.1.8/mrds/R/coef.ds.R | 10
mrds-2.1.8/mrds/R/coef.io.R | 1
mrds-2.1.8/mrds/R/coef.io.fi.R | 1
mrds-2.1.8/mrds/R/coef.rem.R | 1
mrds-2.1.8/mrds/R/coef.rem.fi.R | 1
mrds-2.1.8/mrds/R/coef.trial.R | 1
mrds-2.1.8/mrds/R/coef.trial.fi.R | 1
mrds-2.1.8/mrds/R/create.ddfobj.R | 10
mrds-2.1.8/mrds/R/create.varstructure.R | 2
mrds-2.1.8/mrds/R/ddf.R | 10
mrds-2.1.8/mrds/R/ddf.ds.R | 29 -
mrds-2.1.8/mrds/R/ddf.io.R | 5
mrds-2.1.8/mrds/R/ddf.io.fi.R | 5
mrds-2.1.8/mrds/R/ddf.rem.R | 5
mrds-2.1.8/mrds/R/ddf.rem.fi.R | 5
mrds-2.1.8/mrds/R/ddf.trial.R | 5
mrds-2.1.8/mrds/R/ddf.trial.fi.R | 5
mrds-2.1.8/mrds/R/detfct.R | 32 -
mrds-2.1.8/mrds/R/detfct.fit.R | 5
mrds-2.1.8/mrds/R/detfct.fit.opt.R | 90 ++--
mrds-2.1.8/mrds/R/dht.R | 8
mrds-2.1.8/mrds/R/dht.deriv.R | 2
mrds-2.1.8/mrds/R/flnl.R | 7
mrds-2.1.8/mrds/R/flpt.lnl.r | 24 -
mrds-2.1.8/mrds/R/flt.var.R | 3
mrds-2.1.8/mrds/R/gstdint.R | 57 ++-
mrds-2.1.8/mrds/R/histline.R | 7
mrds-2.1.8/mrds/R/integratepdf.r | 81 +---
mrds-2.1.8/mrds/R/plot.det.tables.R | 7
mrds-2.1.8/mrds/R/plot.ds.R | 8
mrds-2.1.8/mrds/R/plot.io.R | 5
mrds-2.1.8/mrds/R/plot.io.fi.R | 2
mrds-2.1.8/mrds/R/plot.rem.R | 4
mrds-2.1.8/mrds/R/plot.rem.fi.R | 4
mrds-2.1.8/mrds/R/plot.trial.R | 2
mrds-2.1.8/mrds/R/plot.trial.fi.R | 2
mrds-2.1.8/mrds/R/predict.ds.R | 37 -
mrds-2.1.8/mrds/R/predict.io.R | 1
mrds-2.1.8/mrds/R/predict.io.fi.R | 1
mrds-2.1.8/mrds/R/predict.rem.R | 1
mrds-2.1.8/mrds/R/predict.rem.fi.R | 1
mrds-2.1.8/mrds/R/predict.trial.R | 1
mrds-2.1.8/mrds/R/predict.trial.fi.R | 1
mrds-2.1.8/mrds/R/print.ddf.R | 3
mrds-2.1.8/mrds/R/print.det.tables.R | 2
mrds-2.1.8/mrds/R/print.summary.ds.R | 3
mrds-2.1.8/mrds/R/print.summary.io.R | 3
mrds-2.1.8/mrds/R/print.summary.io.fi.R | 4
mrds-2.1.8/mrds/R/print.summary.rem.R | 4
mrds-2.1.8/mrds/R/print.summary.rem.fi.R | 4
mrds-2.1.8/mrds/R/print.summary.trial.R | 4
mrds-2.1.8/mrds/R/print.summary.trial.fi.R | 4
mrds-2.1.8/mrds/R/sethazard.R | 1
mrds-2.1.8/mrds/R/summary.ds.R | 4
mrds-2.1.8/mrds/R/summary.io.R | 4
mrds-2.1.8/mrds/R/summary.io.fi.R | 4
mrds-2.1.8/mrds/R/summary.rem.R | 4
mrds-2.1.8/mrds/R/summary.rem.fi.R | 4
mrds-2.1.8/mrds/R/summary.trial.R | 4
mrds-2.1.8/mrds/R/summary.trial.fi.R | 4
mrds-2.1.8/mrds/README.md | 22 +
mrds-2.1.8/mrds/data/book.tee.data.rda |binary
mrds-2.1.8/mrds/inst/testData/ltresults.rda |binary
mrds-2.1.8/mrds/inst/testData/summaryresults.rda |binary
mrds-2.1.8/mrds/man/DeltaMethod.Rd | 69 +--
mrds-2.1.8/mrds/man/NCovered.Rd | 17
mrds-2.1.8/mrds/man/adj.check.order.Rd | 29 -
mrds-2.1.8/mrds/man/apex.gamma.Rd | 3
mrds-2.1.8/mrds/man/assign.default.values.Rd | 13
mrds-2.1.8/mrds/man/assign.par.Rd | 24 -
mrds-2.1.8/mrds/man/average.line.Rd | 36 -
mrds-2.1.8/mrds/man/average.line.cond.Rd | 32 -
mrds-2.1.8/mrds/man/book.tee.data.Rd | 12
mrds-2.1.8/mrds/man/calc.se.Np.Rd | 10
mrds-2.1.8/mrds/man/cdf.ds.Rd | 26 -
mrds-2.1.8/mrds/man/cds.Rd | 42 +-
mrds-2.1.8/mrds/man/check.bounds.Rd | 20 -
mrds-2.1.8/mrds/man/check.mono.Rd | 65 +--
mrds-2.1.8/mrds/man/coef.ds.Rd | 37 -
mrds-2.1.8/mrds/man/compute.Nht.Rd | 19 -
mrds-2.1.8/mrds/man/covered.region.dht.Rd | 12
mrds-2.1.8/mrds/man/create.ddfobj.Rd | 46 +-
mrds-2.1.8/mrds/man/create.model.frame.Rd | 35 -
mrds-2.1.8/mrds/man/create.varstructure.Rd | 47 +-
mrds-2.1.8/mrds/man/ddf.Rd | 395 +++++++++------------
mrds-2.1.8/mrds/man/ddf.ds.Rd | 92 ++--
mrds-2.1.8/mrds/man/ddf.gof.Rd | 24 -
mrds-2.1.8/mrds/man/ddf.io.Rd | 91 ++--
mrds-2.1.8/mrds/man/ddf.io.fi.Rd | 85 ++--
mrds-2.1.8/mrds/man/ddf.rem.Rd | 84 ++--
mrds-2.1.8/mrds/man/ddf.rem.fi.Rd | 89 ++--
mrds-2.1.8/mrds/man/ddf.trial.Rd | 89 ++--
mrds-2.1.8/mrds/man/ddf.trial.fi.Rd | 79 +---
mrds-2.1.8/mrds/man/det.tables.Rd | 24 -
mrds-2.1.8/mrds/man/detfct.fit.Rd | 84 ++--
mrds-2.1.8/mrds/man/detfct.fit.opt.Rd | 88 ++--
mrds-2.1.8/mrds/man/dht.Rd | 387 +++++++++-----------
mrds-2.1.8/mrds/man/dht.deriv.Rd | 27 -
mrds-2.1.8/mrds/man/dht.se.Rd | 149 +++----
mrds-2.1.8/mrds/man/distpdf.Rd | 127 +++---
mrds-2.1.8/mrds/man/ds.function.Rd | 30 -
mrds-2.1.8/mrds/man/errors.Rd | 7
mrds-2.1.8/mrds/man/flnl.Rd | 72 +--
mrds-2.1.8/mrds/man/flt.var.Rd | 29 -
mrds-2.1.8/mrds/man/g0.Rd | 5
mrds-2.1.8/mrds/man/getpar.Rd | 33 -
mrds-2.1.8/mrds/man/gof.ds.Rd | 7
mrds-2.1.8/mrds/man/gstdint.Rd | 36 -
mrds-2.1.8/mrds/man/histline.Rd | 39 +-
mrds-2.1.8/mrds/man/integratedetfct.logistic.Rd | 23 -
mrds-2.1.8/mrds/man/integratelogistic.analytic.Rd | 15
mrds-2.1.8/mrds/man/integratepdf.Rd | 39 --
mrds-2.1.8/mrds/man/io.glm.Rd | 63 +--
mrds-2.1.8/mrds/man/is.linear.logistic.Rd | 33 -
mrds-2.1.8/mrds/man/is.logistic.constant.Rd | 12
mrds-2.1.8/mrds/man/keyfct.th1.Rd | 7
mrds-2.1.8/mrds/man/keyfct.th2.Rd | 7
mrds-2.1.8/mrds/man/lfbcvi.Rd | 84 +---
mrds-2.1.8/mrds/man/lfgcwa.Rd | 84 +---
mrds-2.1.8/mrds/man/logisticbyx.Rd | 17
mrds-2.1.8/mrds/man/logisticbyz.Rd | 14
mrds-2.1.8/mrds/man/logisticdetfct.Rd | 16
mrds-2.1.8/mrds/man/logisticdupbyx.Rd | 19 -
mrds-2.1.8/mrds/man/logit.Rd | 3
mrds-2.1.8/mrds/man/mcds.Rd | 40 --
mrds-2.1.8/mrds/man/mrds-opt.Rd | 82 ----
mrds-2.1.8/mrds/man/mrds-package.Rd | 34 -
mrds-2.1.8/mrds/man/p.det.Rd | 14
mrds-2.1.8/mrds/man/pdot.dsr.integrate.logistic.Rd | 27 -
mrds-2.1.8/mrds/man/plot.det.tables.Rd | 28 -
mrds-2.1.8/mrds/man/plot.ds.Rd | 89 ++--
mrds-2.1.8/mrds/man/plot.io.Rd | 103 ++---
mrds-2.1.8/mrds/man/plot.io.fi.Rd | 103 ++---
mrds-2.1.8/mrds/man/plot.layout.Rd | 15
mrds-2.1.8/mrds/man/plot.rem.Rd | 93 ++--
mrds-2.1.8/mrds/man/plot.rem.fi.Rd | 93 ++--
mrds-2.1.8/mrds/man/plot.trial.Rd | 91 ++--
mrds-2.1.8/mrds/man/plot.trial.fi.Rd | 91 ++--
mrds-2.1.8/mrds/man/plot_cond.Rd | 60 +--
mrds-2.1.8/mrds/man/plot_uncond.Rd | 65 +--
mrds-2.1.8/mrds/man/predict.ds.Rd | 105 ++---
mrds-2.1.8/mrds/man/print.ddf.Rd | 10
mrds-2.1.8/mrds/man/print.ddf.gof.Rd | 11
mrds-2.1.8/mrds/man/print.det.tables.Rd | 6
mrds-2.1.8/mrds/man/print.dht.Rd | 20 -
mrds-2.1.8/mrds/man/print.summary.ds.Rd | 15
mrds-2.1.8/mrds/man/print.summary.io.Rd | 15
mrds-2.1.8/mrds/man/print.summary.io.fi.Rd | 15
mrds-2.1.8/mrds/man/print.summary.rem.Rd | 15
mrds-2.1.8/mrds/man/print.summary.rem.fi.Rd | 15
mrds-2.1.8/mrds/man/print.summary.trial.Rd | 15
mrds-2.1.8/mrds/man/print.summary.trial.fi.Rd | 15
mrds-2.1.8/mrds/man/prob.deriv.Rd | 29 -
mrds-2.1.8/mrds/man/prob.se.Rd | 36 -
mrds-2.1.8/mrds/man/process.data.Rd | 85 ++--
mrds-2.1.8/mrds/man/pronghorn.Rd | 41 --
mrds-2.1.8/mrds/man/ptdata.distance.Rd | 1
mrds-2.1.8/mrds/man/ptdata.dual.Rd | 6
mrds-2.1.8/mrds/man/ptdata.removal.Rd | 6
mrds-2.1.8/mrds/man/ptdata.single.Rd | 5
mrds-2.1.8/mrds/man/qqplot.ddf.Rd | 61 +--
mrds-2.1.8/mrds/man/rem.glm.Rd | 76 +---
mrds-2.1.8/mrds/man/setbounds.Rd | 21 -
mrds-2.1.8/mrds/man/setcov.Rd | 30 -
mrds-2.1.8/mrds/man/setinitial.ds.Rd | 29 -
mrds-2.1.8/mrds/man/sim.mix.Rd | 21 -
mrds-2.1.8/mrds/man/stake77.Rd | 16
mrds-2.1.8/mrds/man/stake78.Rd | 29 -
mrds-2.1.8/mrds/man/summary.ds.Rd | 41 --
mrds-2.1.8/mrds/man/summary.io.Rd | 38 --
mrds-2.1.8/mrds/man/summary.io.fi.Rd | 47 +-
mrds-2.1.8/mrds/man/summary.rem.Rd | 38 --
mrds-2.1.8/mrds/man/summary.rem.fi.Rd | 45 +-
mrds-2.1.8/mrds/man/summary.trial.Rd | 38 --
mrds-2.1.8/mrds/man/summary.trial.fi.Rd | 45 +-
mrds-2.1.8/mrds/man/survey.region.dht.Rd | 19 -
mrds-2.1.8/mrds/man/test.breaks.Rd | 14
mrds-2.1.8/mrds/man/varn.Rd | 84 +---
mrds-2.1.8/mrds/tests/testthat/test_easy.R | 3
mrds-2.1.8/mrds/tests/testthat/test_gamma.R |only
mrds-2.1.8/mrds/tests/testthat/test_plotting.R | 16
mrds-2.1.8/mrds/tests/testthat/test_pt.R | 2
mrds-2.1.8/mrds/tests/testthat/test_summary.R | 9
193 files changed, 2913 insertions(+), 3609 deletions(-)
Title: Gamma Lasso Regression
Diff between gamlr versions 1.11-3 dated 2014-04-07 and 1.12 dated 2014-09-15
Description: This package implements the gamma lasso algorithm for regularization paths corresponding to a range of non-convex cost functions between L0 and L1 norms. As much as possible, usage is analogous to that for the glmnet package (which does the same thing for penalization between L1 and L2 norms).
Author: Matt Taddy
Maintainer: Matt Taddy
DESCRIPTION | 9 +-
MD5 | 20 +++---
R/cv.gamlr.R | 43 ++++++++++---
R/gamlr.R | 185 ++++++++++++++++++++++++++++++++++++++------------------
data/hockey.rda |binary
man/cv.gamlr.Rd | 7 +-
man/gamlr.Rd | 28 ++++----
man/hockey.Rd | 56 ++++++++++------
src/gamlr.c | 176 +++++++++++++++++++++++++++--------------------------
src/lhd.c | 63 ++++++-------------
src/lhd.h | 10 ---
11 files changed, 344 insertions(+), 253 deletions(-)
Title: Density surface modelling of distance sampling data
Diff between dsm versions 2.2.4 dated 2014-06-17 and 2.2.5 dated 2014-09-15
Description: This library implements density surface modelling of line
transect data, based on the methods of Hedley et al. (2004). Some
recent developments in the literature have also be incorporated.
Outputs are point and interval estimates of population abundance
and density.
Please note that this version of dsm WILL NOT work with the Windows
package DISTANCE earlier than version 6.2. For a version that works with
DISTANCE 6.1, please go to:
https://github.com/DistanceDevelopment/dsm-distance-6.1
For the latest version of dsm, please use the github version at the URL
listed below.
Miller, D. L., M. L. Burt, E. Rexstad and L. Thomas. 2013. Spatial
models for distance sampling data: recent developments and future
directions. Methods in Ecology and Evolution
Hedley, S.L., S.T. Buckland and D.L. Borchers. 2004. "Spatial
distance sampling methods" pp 48-70 in Advanced Distance Sampling,
Buckland, S.T. et al. (eds). Oxford University Press.
Author: David L. Miller, Eric Rexstad, Louise Burt, Mark V. Bravington,
Sharon Hedley.
Maintainer: David Lawrence Miller
DESCRIPTION | 10 +++++-----
MD5 | 18 +++++++++---------
NEWS | 4 ++++
R/dsm.var.prop.R | 10 +++++++++-
R/make.data.R | 7 +++++++
R/plot.dsm.var.R | 40 +++++++++++++++++++++++++++-------------
man/dsm.var.prop.Rd | 2 ++
tests/testthat/test_input.R | 7 ++++++-
tests/testthat/test_mex.R | 6 +++---
tests/testthat/test_movblk.R | 10 +++++-----
10 files changed, 77 insertions(+), 37 deletions(-)
Title: A simple way to fit detection functions to distance sampling
data and calculate abundance/density for biological
populations.
Diff between Distance versions 0.9.1 dated 2014-06-10 and 0.9.2 dated 2014-09-15
Description: A library that provides a simple way of fitting detection
functions to distance sampling data for both line and point transects.
Adjustment term selection, left and right truncation as well as
monotonicity constraints and binning are supported. Abundance and density
estimates can also be calculated if survey area information is provided.
Author: David Lawrence Miller
Maintainer: David Lawrence Miller
DESCRIPTION | 10 +++++-----
MD5 | 6 +++---
tests/testthat/test_ds.R | 26 +++++++++++++++-----------
tests/testthat/test_pt.R | 7 ++++---
4 files changed, 27 insertions(+), 22 deletions(-)
Title: function collection related to hydrology, zooming and shapefiles
Diff between berryFunctions versions 1.5.1 dated 2014-09-04 and 1.5.2 dated 2014-09-15
More information about berryFunctions at CRAN
Description: collection of functions to: zoom in X11 graphics and ESRI shapefile plots, use the unit hydrograph in a linear storage cascade, compare several extreme-value-distributions at return periods, draw horizontal histograms and scatterplots colored by 3rd dimension, convert lists to data.frames, fit multiple functions (power, reciprocal, exponential, logarithmic, polynomial, rational) by regression.
Author: Berry Boessenkool
Maintainer: Berry Boessenkool
ChangeLog | 52 ++++++++++++++++++++++++++++++++++--------------
DESCRIPTION | 8 +++----
MD5 | 32 +++++++++++++++--------------
R/changeAttribute.r | 1
R/combineTextfiles.r | 6 +++--
R/extremeStatLmom.r | 2 +
R/logAxis.R |only
R/nse.r | 13 ++++++------
R/rmse.r | 3 +-
R/rsquare.r | 11 +++++-----
R/shapeZoom.R | 1
R/showAttribute.r | 1
man/betaPlot.Rd | 2 -
man/combineTextfiles.Rd | 8 +++----
man/logAxis.Rd |only
man/logVals.Rd | 4 +--
man/normPlot.Rd | 2 -
man/unitHydrograph.Rd | 2 -
18 files changed, 91 insertions(+), 57 deletions(-)
Permanent link
Title: Modelling and analysis of real-time PCR data
Diff between qpcR versions 1.3-9 dated 2014-08-11 and 1.4-0 dated 2014-09-15
Description: Model fitting, optimal model selection and calculation of various features that are essential in the analysis of quantitative real-time polymerase chain reaction (qPCR).
Author: Andrej-Nikolai Spiess
Maintainer: Andrej-Nikolai Spiess
qpcR-1.3-9/qpcR/data/qpcR_functions.rda |only
qpcR-1.4-0/qpcR/DESCRIPTION | 8 +-
qpcR-1.4-0/qpcR/MD5 | 27 ++++-----
qpcR-1.4-0/qpcR/NAMESPACE | 10 +--
qpcR-1.4-0/qpcR/NEWS | 16 +++++
qpcR-1.4-0/qpcR/R/efficiency.R | 21 -------
qpcR-1.4-0/qpcR/R/modlist.r | 93 ++++++++++++++------------------
qpcR-1.4-0/qpcR/R/pcrbatch.r | 12 ++--
qpcR-1.4-0/qpcR/R/sysdata.rda |only
qpcR-1.4-0/qpcR/R/utils.R | 36 ++++++++++++
qpcR-1.4-0/qpcR/data/datalist | 2
qpcR-1.4-0/qpcR/data/sysdata.rda |only
qpcR-1.4-0/qpcR/man/calib.rd | 8 +-
qpcR-1.4-0/qpcR/man/efficiency.Rd | 6 --
qpcR-1.4-0/qpcR/man/modlist.Rd | 33 +++++++++--
qpcR-1.4-0/qpcR/man/pcrbatch.Rd | 18 +++---
16 files changed, 167 insertions(+), 123 deletions(-)
Title: Functions for medical statistics book with some demographic data
Diff between fmsb versions 0.5.0 dated 2014-08-04 and 0.5.1 dated 2014-09-15
Description: Several utility functions for the book entitled
"Practices of Medical and Health Data Analysis using R"
(Pearson Education Japan, 2007) with Japanese demographic
data and some demographic analysis related functions.
Author: Minato Nakazawa
Maintainer: Minato Nakazawa
DESCRIPTION | 8 -
MD5 | 13 +--
NAMESPACE | 3
NEWS | 6 +
R/demogjpn.R | 194 +++++++++++++++++++++++++++++++++++++++++++-----
R/fmsb.R | 3
man/Jvital.Rd | 6 -
man/Jvital2013byPref.Rd |only
8 files changed, 201 insertions(+), 32 deletions(-)
Title: Permutations and Mallows distributions
Diff between PerMallows versions 1.3 dated 2014-07-03 and 1.7 dated 2014-09-15
Description: This package includes functions to work with the Mallows, Generalized Mallows and Weighted Mallows Models. The considered distances are Kendall's-tau, Cayley, Hamming and Ulam and it includes functions for making inference, sampling and learning such distributions, some of which are novel in the literature. As a by-product, PerMallows also includes operations for permutations, paying special attention in those related with the Kendall's-tau, Cayley, Ulam and Hamming distances and the random generation of permutations.
Author: Ekhine Irurozki
Maintainer: Ekhine Irurozki
PerMallows-1.3/PerMallows/data/data.1.rda |only
PerMallows-1.3/PerMallows/data/data.2.rda |only
PerMallows-1.3/PerMallows/data/data.3.rda |only
PerMallows-1.3/PerMallows/data/data.txt.gz |only
PerMallows-1.3/PerMallows/data/datapos.rda |only
PerMallows-1.3/PerMallows/man/data.1.Rd |only
PerMallows-1.3/PerMallows/man/data.2.Rd |only
PerMallows-1.3/PerMallows/man/data.3.Rd |only
PerMallows-1.3/PerMallows/man/data.Rd |only
PerMallows-1.3/PerMallows/man/datapos.Rd |only
PerMallows-1.3/PerMallows/src/Ulam_experiments.cpp |only
PerMallows-1.3/PerMallows/src/Ulam_experiments.h |only
PerMallows-1.7/PerMallows/DESCRIPTION | 8
PerMallows-1.7/PerMallows/MD5 | 120 +-
PerMallows-1.7/PerMallows/R/PerMallows.R | 135 +-
PerMallows-1.7/PerMallows/data/perm.sample.med.rda |only
PerMallows-1.7/PerMallows/data/perm.sample.small.rda |only
PerMallows-1.7/PerMallows/man/compose.Rd | 2
PerMallows-1.7/PerMallows/man/count.derangements.Rd | 2
PerMallows-1.7/PerMallows/man/count.perms.cycles.Rd | 2
PerMallows-1.7/PerMallows/man/count.perms.distance.Rd | 2
PerMallows-1.7/PerMallows/man/count.perms.fixed.points.Rd | 2
PerMallows-1.7/PerMallows/man/count.perms.unfixed.points.gtet.Rd | 2
PerMallows-1.7/PerMallows/man/cycle2str.Rd | 2
PerMallows-1.7/PerMallows/man/cycles2permutation.Rd | 2
PerMallows-1.7/PerMallows/man/data.apa.Rd | 2
PerMallows-1.7/PerMallows/man/data.order.Rd | 2
PerMallows-1.7/PerMallows/man/decomposition2permutation.Rd | 2
PerMallows-1.7/PerMallows/man/dgmm.Rd | 2
PerMallows-1.7/PerMallows/man/distance.Rd | 2
PerMallows-1.7/PerMallows/man/dmm.Rd | 2
PerMallows-1.7/PerMallows/man/expectation.gmm.Rd | 2
PerMallows-1.7/PerMallows/man/expectation.mm.Rd | 2
PerMallows-1.7/PerMallows/man/freq.matrix.Rd | 2
PerMallows-1.7/PerMallows/man/generate.aux.files.Rd | 2
PerMallows-1.7/PerMallows/man/identity.permutation.Rd | 2
PerMallows-1.7/PerMallows/man/insert.at.Rd | 2
PerMallows-1.7/PerMallows/man/inverse.permutation.Rd | 2
PerMallows-1.7/PerMallows/man/inversion.at.Rd | 2
PerMallows-1.7/PerMallows/man/is.permutation.Rd | 2
PerMallows-1.7/PerMallows/man/lgmm.Rd | 6
PerMallows-1.7/PerMallows/man/lgmm.theta.Rd |only
PerMallows-1.7/PerMallows/man/lmm.Rd | 6
PerMallows-1.7/PerMallows/man/lmm.theta.Rd |only
PerMallows-1.7/PerMallows/man/marginal.Rd | 6
PerMallows-1.7/PerMallows/man/order.ratings.Rd | 2
PerMallows-1.7/PerMallows/man/perm.sample.med.Rd |only
PerMallows-1.7/PerMallows/man/perm.sample.small.Rd |only
PerMallows-1.7/PerMallows/man/permutation2cycles.Rd | 2
PerMallows-1.7/PerMallows/man/permutation2decomposition.Rd | 2
PerMallows-1.7/PerMallows/man/permutations.of.Rd | 2
PerMallows-1.7/PerMallows/man/r.derangement.Rd | 2
PerMallows-1.7/PerMallows/man/r.dist.d.Rd | 2
PerMallows-1.7/PerMallows/man/r.perms.cycles.Rd | 2
PerMallows-1.7/PerMallows/man/read.permutation.file.Rd | 2
PerMallows-1.7/PerMallows/man/rgmm.Rd | 2
PerMallows-1.7/PerMallows/man/rmm.Rd | 2
PerMallows-1.7/PerMallows/man/runif.permutation.Rd | 2
PerMallows-1.7/PerMallows/man/swap.Rd | 2
PerMallows-1.7/PerMallows/src/Cayley.cpp | 28
PerMallows-1.7/PerMallows/src/Ferrers_diagram.cpp | 8
PerMallows-1.7/PerMallows/src/Generic.cpp | 25
PerMallows-1.7/PerMallows/src/Generic.h | 2
PerMallows-1.7/PerMallows/src/Hamming.cpp | 30
PerMallows-1.7/PerMallows/src/Kendall.cpp | 16
PerMallows-1.7/PerMallows/src/Ulam.cpp | 17
PerMallows-1.7/PerMallows/src/Ulam_disk.cpp | 7
PerMallows-1.7/PerMallows/src/Wrapper.cpp | 34
PerMallows-1.7/PerMallows/src/main.cpp | 2
PerMallows-1.7/PerMallows/vignettes/PerMallows.tex | 478 ++++++----
70 files changed, 611 insertions(+), 387 deletions(-)
Title: Redis client for R
Diff between rredis versions 1.6.8 dated 2013-09-17 and 1.6.9 dated 2014-09-15
Description: An R client for the Redis persistent key-value database available from http://redis.io.
Author: B. W. Lewis
Maintainer: B. W. Lewis
rredis-1.6.8/rredis/.Rinstignore |only
rredis-1.6.8/rredis/R/libsock.R |only
rredis-1.6.8/rredis/inst/test/basicTest.R |only
rredis-1.6.8/rredis/inst/test/bitopTest.R |only
rredis-1.6.8/rredis/inst/test/endTest.R |only
rredis-1.6.8/rredis/inst/test/runTest.R |only
rredis-1.6.8/rredis/inst/test/setTest.R |only
rredis-1.6.8/rredis/inst/test/zsetTest.R |only
rredis-1.6.8/rredis/man/redisRPush.Rd |only
rredis-1.6.9/rredis/DESCRIPTION | 9 ++--
rredis-1.6.9/rredis/MD5 | 42 ++++++++++-----------
rredis-1.6.9/rredis/NEWS | 7 +++
rredis-1.6.9/rredis/R/controlCMD.R | 23 +++++-------
rredis-1.6.9/rredis/R/listCMD.R | 8 ++--
rredis-1.6.9/rredis/R/redis-internal.R | 27 +++++++++-----
rredis-1.6.9/rredis/R/scriptCMD.R | 7 +--
rredis-1.6.9/rredis/R/zsetVal.R | 7 +++
rredis-1.6.9/rredis/README | 18 ++++-----
rredis-1.6.9/rredis/README.md |only
rredis-1.6.9/rredis/inst/doc/rredis.Rnw | 4 +-
rredis-1.6.9/rredis/inst/doc/rredis.pdf |binary
rredis-1.6.9/rredis/inst/test/runit.basicTest.R |only
rredis-1.6.9/rredis/inst/test/runit.bitopTest.R |only
rredis-1.6.9/rredis/inst/test/runit.endTest.R |only
rredis-1.6.9/rredis/inst/test/runit.setTest.R |only
rredis-1.6.9/rredis/inst/test/runit.zsetTest.R |only
rredis-1.6.9/rredis/man/redisLPush.Rd | 16 +++++---
rredis-1.6.9/rredis/man/redisZCount.Rd |only
rredis-1.6.9/rredis/src/libsock.c | 46 ++++++++++++++++++++++--
rredis-1.6.9/rredis/tests |only
rredis-1.6.9/rredis/vignettes/rredis.Rnw | 4 +-
31 files changed, 143 insertions(+), 75 deletions(-)
Title: Inverse Estimation/Calibration Functions
Diff between investr versions 1.1.1 dated 2014-09-09 and 1.1.2 dated 2014-09-15
Description: Functions to facilitate inverse estimation/calibration in linear,
nonlinear, and (linear) mixed models. A generic function is also provided
for plotting fitted regression models with or without confidence/prediction
bands that may be of use to the general user.
Author: Brandon M. Greenwell
Maintainer: Brandon M. Greenwell
DESCRIPTION | 17 +++-----
MD5 | 9 ++--
NEWS | 8 +--
tests/testthat/test-invest.R | 30 +++++++-------
tests/testthat/test-predict2.R |only
tests/testthat/test-utilities.R | 82 +++++++---------------------------------
6 files changed, 46 insertions(+), 100 deletions(-)
Title: Path algorithm for generalized lasso problems
Diff between genlasso versions 1.2 dated 2014-03-02 and 1.3 dated 2014-09-15
Description: This package computes the solution path for generalized lasso problems. Important use cases are the fused lasso over an arbitrary graph, and trend fitting of any given polynomial order. Specialized implementations for the latter two subproblems are given to improve stability and speed.
Author: Taylor B. Arnold and Ryan J. Tibshirani
Maintainer: Taylor Arnold
genlasso-1.2/genlasso/R/dualpathFusedXnew.R |only
genlasso-1.2/genlasso/R/filebackout.R |only
genlasso-1.2/genlasso/man/filebackout.Rd |only
genlasso-1.3/genlasso/DESCRIPTION | 15 -
genlasso-1.3/genlasso/MD5 | 73 ++---
genlasso-1.3/genlasso/NAMESPACE | 3
genlasso-1.3/genlasso/NEWS | 7
genlasso-1.3/genlasso/R/backsolveSparse.R | 3
genlasso-1.3/genlasso/R/cv.trendfilter.R | 7
genlasso-1.3/genlasso/R/dualpath.R | 12
genlasso-1.3/genlasso/R/dualpathFused.R | 137 +++------
genlasso-1.3/genlasso/R/dualpathFusedL1.R | 142 +++------
genlasso-1.3/genlasso/R/dualpathFusedL1X.R | 346 +++++++++++------------
genlasso-1.3/genlasso/R/dualpathFusedX.R | 379 ++++++++++++--------------
genlasso-1.3/genlasso/R/dualpathSvd.R |only
genlasso-1.3/genlasso/R/dualpathTall.R | 18 -
genlasso-1.3/genlasso/R/dualpathTrendX.R | 64 +++-
genlasso-1.3/genlasso/R/dualpathWide.R | 9
genlasso-1.3/genlasso/R/dualpathWideSparse.R | 7
genlasso-1.3/genlasso/R/fusedlasso.R | 43 +-
genlasso-1.3/genlasso/R/fusedlasso1d.R | 20 -
genlasso-1.3/genlasso/R/fusedlasso2d.R | 14
genlasso-1.3/genlasso/R/genlasso.R | 18 -
genlasso-1.3/genlasso/R/iterate.R | 15 -
genlasso-1.3/genlasso/R/svdsolve.R |only
genlasso-1.3/genlasso/R/trendfilter.R | 28 +
genlasso-1.3/genlasso/build/vignette.rds |binary
genlasso-1.3/genlasso/inst/doc/article.R | 4
genlasso-1.3/genlasso/inst/doc/article.Rnw | 273 +++++++++---------
genlasso-1.3/genlasso/inst/doc/article.pdf |binary
genlasso-1.3/genlasso/man/coef.genlasso.Rd | 3
genlasso-1.3/genlasso/man/cv.trendfilter.Rd | 20 -
genlasso-1.3/genlasso/man/fusedlasso.Rd | 122 ++++----
genlasso-1.3/genlasso/man/genlasso-package.Rd | 5
genlasso-1.3/genlasso/man/genlasso.Rd | 43 ++
genlasso-1.3/genlasso/man/iterate.Rd | 15 -
genlasso-1.3/genlasso/man/softthresh.Rd | 6
genlasso-1.3/genlasso/man/trendfilter.Rd | 56 ++-
genlasso-1.3/genlasso/vignettes/article.Rnw | 271 +++++++++---------
genlasso-1.3/genlasso/vignettes/bibfile.bib | 21 -
40 files changed, 1091 insertions(+), 1108 deletions(-)
Title: Forecasting mortality, fertility, migration and population data
Diff between demography versions 1.17 dated 2014-02-01 and 1.18 dated 2014-09-15
Description: Functions for demographic analysis including lifetable
calculations; Lee-Carter modelling; functional data analysis of
mortality rates, fertility rates, net migration numbers; and
stochastic population forecasting.
Author: Rob J Hyndman with contributions from Heather Booth, Leonie Tickle and John Maindonald.
Maintainer: Rob J Hyndman
ChangeLog | 8
DESCRIPTION | 7
MD5 | 17 -
R/demogdata.R | 893 +++++++++++++++++++++++++++++-----------------------------
R/fdm.R | 25 -
R/lca.R | 44 +-
R/lifetable.R | 2
R/simulate.R | 8
README.md |only
man/lca.Rd | 20 -
10 files changed, 531 insertions(+), 493 deletions(-)