Title: tools for working with ICD-9 codes, and finding comorbidities
Diff between icd9 versions 0.2.1 dated 2014-07-02 and 0.3 dated 2014-07-07
Description: This package allows accurate manipulation, validation and
comparison of ICD-9-CM (clinical modification) codes. Although ICD-9 codes
appear numeric, this is not the case, since trailing zeroes, and a mixture
of decimal and non-decimal "short" format codes exist. Tools to map ICD-9
codes to co-morbidities are also provided, with mappings from Quan (Deyo
and Elixhauser versions), Elixhauser and AHRQ included.
Author: Jack O. Wasey [aut, cre]
Maintainer: Jack O. Wasey
icd9-0.2.1/icd9/R/icd9.R |only
icd9-0.2.1/icd9/man/getInvalidDecimalIcd9.Rd |only
icd9-0.2.1/icd9/man/grapes-i9mj-grapes.Rd |only
icd9-0.2.1/icd9/man/icd9AddLeadingZeroesDecimal.Rd |only
icd9-0.2.1/icd9/man/icd9AddLeadingZeroesMajor.Rd |only
icd9-0.2.1/icd9/man/icd9AddLeadingZeroesShort.Rd |only
icd9-0.2.1/icd9/man/icd9DropZeroFromDecimal.Rd |only
icd9-0.3/icd9/DESCRIPTION | 10
icd9-0.3/icd9/MD5 | 133 ++++----
icd9-0.3/icd9/NAMESPACE | 10
icd9-0.3/icd9/NEWS | 17 +
icd9-0.3/icd9/R/comorbid.R | 100 ++----
icd9-0.3/icd9/R/convert.R |only
icd9-0.3/icd9/R/datadocs.R | 53 +++
icd9-0.3/icd9/R/explain.R |only
icd9-0.3/icd9/R/manip.R |only
icd9-0.3/icd9/R/parse.R | 44 ++
icd9-0.3/icd9/R/ranges.R |only
icd9-0.3/icd9/R/util.R | 90 ++++-
icd9-0.3/icd9/R/valid.R | 144 ++++++--
icd9-0.3/icd9/README.md | 30 -
icd9-0.3/icd9/data/ahrqComorbid.RData |binary
icd9-0.3/icd9/data/ahrqComorbidAll.RData |binary
icd9-0.3/icd9/data/elixhauserComorbid.RData |binary
icd9-0.3/icd9/data/icd9CmChapters.rda |only
icd9-0.3/icd9/inst/doc/icd9.R | 57 ++-
icd9-0.3/icd9/inst/doc/icd9.Rnw | 101 ++++--
icd9-0.3/icd9/inst/doc/icd9.pdf |binary
icd9-0.3/icd9/man/allIsNumeric.Rd | 7
icd9-0.3/icd9/man/asCharacterNoWarn.Rd | 3
icd9-0.3/icd9/man/asNumericNoWarn.Rd | 5
icd9-0.3/icd9/man/icd9AddLeadingZeroes.Rd |only
icd9-0.3/icd9/man/icd9ChapterShort.Rd |only
icd9-0.3/icd9/man/icd9ChildrenDecimal.Rd | 7
icd9-0.3/icd9/man/icd9ChildrenShort.Rd | 17 -
icd9-0.3/icd9/man/icd9CmChapters.Rd |only
icd9-0.3/icd9/man/icd9CmDesc.Rd | 30 +
icd9-0.3/icd9/man/icd9Comorbidities.Rd | 5
icd9-0.3/icd9/man/icd9CondenseShort.Rd | 4
icd9-0.3/icd9/man/icd9CondenseToExplainShort.Rd | 4
icd9-0.3/icd9/man/icd9DecimalToMajor.Rd |only
icd9-0.3/icd9/man/icd9DecimalToParts.Rd | 9
icd9-0.3/icd9/man/icd9DecimalToShort.Rd | 21 -
icd9-0.3/icd9/man/icd9DropLeadingZeroes.Rd |only
icd9-0.3/icd9/man/icd9ExpandMinor.Rd | 7
icd9-0.3/icd9/man/icd9ExpandRangeDecimal.Rd | 3
icd9-0.3/icd9/man/icd9ExpandRangeMajor.Rd |only
icd9-0.3/icd9/man/icd9ExpandRangeShort.Rd | 13
icd9-0.3/icd9/man/icd9Explain.Rd | 18 -
icd9-0.3/icd9/man/icd9InReferenceCode.Rd | 8
icd9-0.3/icd9/man/icd9InvalidActions.Rd |only
icd9-0.3/icd9/man/icd9InvalidDecimal.Rd |only
icd9-0.3/icd9/man/icd9IsVE.Rd |only
icd9-0.3/icd9/man/icd9ParentMinor.Rd |only
icd9-0.3/icd9/man/icd9PartsRecompose.Rd | 63 ++-
icd9-0.3/icd9/man/icd9ShortToDecimal.Rd | 30 -
icd9-0.3/icd9/man/icd9ShortToMajor.Rd |only
icd9-0.3/icd9/man/icd9ShortToParts.Rd | 8
icd9-0.3/icd9/man/icd9SortShort.Rd | 3
icd9-0.3/icd9/man/icd9SubsequentMinors.Rd | 7
icd9-0.3/icd9/man/icd9Tell.Rd |only
icd9-0.3/icd9/man/icd9Valid.Rd | 16
icd9-0.3/icd9/man/icd9ValidDecimal.Rd | 9
icd9-0.3/icd9/man/icd9ValidMajor.Rd | 16
icd9-0.3/icd9/man/icd9ValidMapping.Rd | 16
icd9-0.3/icd9/man/icd9ValidNaWarnStop.Rd | 38 +-
icd9-0.3/icd9/man/icd9ValidShort.Rd | 9
icd9-0.3/icd9/man/logicalToBinary.Rd | 6
icd9-0.3/icd9/man/parseIcd9Chapters.Rd |only
icd9-0.3/icd9/man/read.zip.url.Rd |only
icd9-0.3/icd9/man/spawnReferenceChildren.Rd | 2
icd9-0.3/icd9/man/stopIfInvalidIcd9.Rd | 21 -
icd9-0.3/icd9/man/strip.Rd | 2
icd9-0.3/icd9/tests/testthat/test-comorbid.R | 10
icd9-0.3/icd9/tests/testthat/test-convert.R | 221 +++++++++++--
icd9-0.3/icd9/tests/testthat/test-explain.R |only
icd9-0.3/icd9/tests/testthat/test-icd9.R | 342 +++++++++++----------
icd9-0.3/icd9/tests/testthat/test-ranges.R | 21 -
icd9-0.3/icd9/tests/testthat/test-validation.R | 21 -
icd9-0.3/icd9/vignettes/icd9-concordance.tex | 9
icd9-0.3/icd9/vignettes/icd9.Rnw | 101 ++++--
81 files changed, 1288 insertions(+), 633 deletions(-)
Title: Searching for optimal clustering procedure for a data set
Diff between clusterSim versions 0.43-4 dated 2014-02-27 and 0.43-5 dated 2014-07-07
Description: GDM Distance,
Sokal-Michener Distance,
Bray-Curtis Distance,
Calinski-Harabasz Index,
G2 Index,
G3 Index,
Silhouette Index,
Krzanowski-Lai Index,
Hartigan Index,
Gap Index,
DB Index,
Data Normalization,
HINoV method,
Replication analysis for cluster validation,
Clustering with several algorithms, distances,
Symbolic interval distances,
Plot functions,
Random cluster generation,
Linear ordering methods,
Comparing partitions,
Spectral clustering,
Ordinal to metric scale transformation,
Untypical data generation.
Author: Marek Walesiak
Maintainer: Andrzej Dudek
DESCRIPTION | 8 -
MD5 | 20 +-
R/data.Normalization.r | 238 ++++++++++++++++++---------------
data/data_binary.rda |binary
data/data_interval.rda |binary
data/data_mixed.rda |binary
data/data_nominal.rda |binary
data/data_ordinal.rda |binary
data/data_ratio.rda |binary
inst/doc/dataNormalization_details.pdf |binary
man/data.Normalization.rd | 2
11 files changed, 147 insertions(+), 121 deletions(-)
Title: Parameterized queries extension for RODBC
Diff between RODBCext versions 0.2.1 dated 2014-07-03 and 0.2.2 dated 2014-07-07
Description: An extension for RODBC package adding support for parameterized
queries
Author: Mateusz Zoltak [aut, cre],
Brian Ripley [aut],
Michael Lapsley [aut]
Maintainer: Mateusz Zoltak
RODBCext |only
1 file changed
Title: Read ODS files and puts them into data frames
Diff between readODS versions 1.3 dated 2014-07-03 and 1.4 dated 2014-07-07
Description: Read ODS (OpenDocument Spreadsheet) files and put them into data
frames.
Author: Gerrit-Jan Schutten
Maintainer: Gerrit-Jan Schutten
DESCRIPTION | 6 +++---
MD5 | 12 ++++++------
R/readODS.R | 7 +++++++
man/getODSRoot.Rd | 1 +
man/lettersToNumber.Rd | 1 +
man/numberToLetters.Rd | 1 +
man/odsPreParser.Rd | 18 ++++++++++++++++--
7 files changed, 35 insertions(+), 11 deletions(-)
Title: Graphing nonlinear latent variable interactions in SEMM
Diff between plotSEMM versions 1.0 dated 2008-04-07 and 2.0 dated 2014-07-07
Description: Contains functions plotSEMM_setup, plotSEMM_contour,
and plotSEMM_probability, which generate the
diagnostic plots proposed by Bauer (2005) to investigate
nonlinear latent variable interactions in SEMM using LISREL
output.
Author: Bethany Kok [ctb],
Jolynn Pek [ctb],
Sonya Sterba [ctb],
Dan Bauer [ctb],
Phil Chalmers [cre, ctb]
Maintainer: Phil Chalmers
plotSEMM-1.0/plotSEMM/R/plotSEMM_legend.R |only
plotSEMM-1.0/plotSEMM/man/plotSEMM-package.Rd |only
plotSEMM-1.0/plotSEMM/man/plotSEMM_legend.Rd |only
plotSEMM-2.0/plotSEMM/DESCRIPTION | 42 +-
plotSEMM-2.0/plotSEMM/MD5 |only
plotSEMM-2.0/plotSEMM/NAMESPACE |only
plotSEMM-2.0/plotSEMM/R/plotSEMM-package.R |only
plotSEMM-2.0/plotSEMM/R/plotSEMM_GUI.R |only
plotSEMM-2.0/plotSEMM/R/plotSEMM_ci.R |only
plotSEMM-2.0/plotSEMM/R/plotSEMM_contour.R | 223 ++++++++-----
plotSEMM-2.0/plotSEMM/R/plotSEMM_probability.R | 184 +++++++----
plotSEMM-2.0/plotSEMM/R/plotSEMM_setup.R | 361 +++++++++++++---------
plotSEMM-2.0/plotSEMM/R/plotSEMM_setup2.R |only
plotSEMM-2.0/plotSEMM/R/read.plotSEMM_wACOV.R |only
plotSEMM-2.0/plotSEMM/R/util.R |only
plotSEMM-2.0/plotSEMM/README.md |only
plotSEMM-2.0/plotSEMM/man/plotSEMM.Rd |only
plotSEMM-2.0/plotSEMM/man/plotSEMM_GUI.Rd |only
plotSEMM-2.0/plotSEMM/man/plotSEMM_contour.Rd | 120 ++++---
plotSEMM-2.0/plotSEMM/man/plotSEMM_probability.Rd | 111 +++---
plotSEMM-2.0/plotSEMM/man/plotSEMM_setup.Rd | 119 +++----
plotSEMM-2.0/plotSEMM/src |only
22 files changed, 710 insertions(+), 450 deletions(-)
Title: Multiple Sequence Alignment
Diff between muscle versions 3.8.31-3 dated 2014-07-04 and 3.8.31-4 dated 2014-07-07
Description: MUSCLE performs multiple sequence alignments of nucleotide or amino acid sequences.
Author: Algorithm by Robert C. Edgar. R port by Alex T. Kalinka.
Maintainer: Alex T. Kalinka
DESCRIPTION | 6 +++---
MD5 | 4 ++--
src/globalslinux.cpp | 9 ++++++++-
3 files changed, 13 insertions(+), 6 deletions(-)
Title: Applied Latent Semantic Analysis (LSA) functions
Diff between LSAfun versions 0.3 dated 2014-06-25 and 0.3.1 dated 2014-07-07
Description: This package provides functions that allow for convenient working
with Latent Semantic Analysis. For actually building an LSA space, use the
package 'lsa'.
Author: Fritz Guenther [aut, cre]
Maintainer: Fritz Guenther
LSAfun-0.3.1/LSAfun/ChangeLog | 15 +++++++++-
LSAfun-0.3.1/LSAfun/DESCRIPTION | 6 ++--
LSAfun-0.3.1/LSAfun/MD5 | 43 +++++++++++++++++-------------
LSAfun-0.3.1/LSAfun/NAMESPACE | 4 +-
LSAfun-0.3.1/LSAfun/R/Predication.r | 8 ++---
LSAfun-0.3.1/LSAfun/R/genericSummary.R | 1
LSAfun-0.3.1/LSAfun/R/neighbors.r |only
LSAfun-0.3.1/LSAfun/R/plot_neighbors.r |only
LSAfun-0.3.1/LSAfun/R/plot_wordlist.r | 9 ++++--
LSAfun-0.3.1/LSAfun/data/datalist |only
LSAfun-0.3.1/LSAfun/data/oldbooks.rda |only
LSAfun-0.3.1/LSAfun/data/priming.rda |only
LSAfun-0.3.1/LSAfun/data/syntest.rda |only
LSAfun-0.3.1/LSAfun/data/wonderland.rda |binary
LSAfun-0.3.1/LSAfun/man/LSAfun-package.Rd | 2 -
LSAfun-0.3.1/LSAfun/man/Predication.Rd | 14 ++++-----
LSAfun-0.3.1/LSAfun/man/choose.target.Rd | 2 -
LSAfun-0.3.1/LSAfun/man/compose.Rd | 2 -
LSAfun-0.3.1/LSAfun/man/costring.Rd | 2 -
LSAfun-0.3.1/LSAfun/man/multicostring.Rd | 4 +-
LSAfun-0.3.1/LSAfun/man/neighbors.Rd |only
LSAfun-0.3.1/LSAfun/man/oldbooks.Rd |only
LSAfun-0.3.1/LSAfun/man/plot_neighbors.Rd |only
LSAfun-0.3.1/LSAfun/man/plot_wordlist.Rd | 9 +++---
LSAfun-0.3.1/LSAfun/man/priming.Rd |only
LSAfun-0.3.1/LSAfun/man/syntest.Rd |only
LSAfun-0.3/LSAfun/R/neighbours.r |only
LSAfun-0.3/LSAfun/R/plot_neighbours.r |only
LSAfun-0.3/LSAfun/man/neighbours.Rd |only
LSAfun-0.3/LSAfun/man/plot_neighbours.Rd |only
30 files changed, 73 insertions(+), 48 deletions(-)
Title: Copula based cluster analysis
Diff between CoClust versions 0.2-9 dated 2013-06-24 and 0.3-0 dated 2014-07-07
Description: Copula based cluster analysis.
Author: Francesca Marta Lilja Di Lascio, Simone Giannerini
Maintainer: Simone Giannerini
CoClust-0.2-9/CoClust/ChangeLog.txt |only
CoClust-0.3-0/CoClust/ChangeLog |only
CoClust-0.3-0/CoClust/DESCRIPTION | 11
CoClust-0.3-0/CoClust/MD5 | 16
CoClust-0.3-0/CoClust/NAMESPACE | 5
CoClust-0.3-0/CoClust/R/CoClust.R | 491 ++++++++-------------------
CoClust-0.3-0/CoClust/R/Internal_functions.R | 149 ++------
CoClust-0.3-0/CoClust/inst/CITATION | 6
CoClust-0.3-0/CoClust/man/CoClust-class.Rd | 4
CoClust-0.3-0/CoClust/man/CoClust.Rd | 24 -
10 files changed, 240 insertions(+), 466 deletions(-)
Title: Package for the analysis of lake physics
Diff between rLakeAnalyzer versions 1.3 dated 2014-02-07 and 1.4 dated 2014-07-07
Description: Standardized methods for calculating common important derived physical features of lakes including water density based based on temperature, thermal layers, thermocline depth, lake number, Wedderburn number, Schmidt stability and others.
Author: Luke Winslow, Jordan Read, Richard Woolway, Jennifer Brentrup, Taylor Leach, Jake Zwart
Maintainer: Luke Winslow
rLakeAnalyzer-1.3/rLakeAnalyzer/R/test.R |only
rLakeAnalyzer-1.3/rLakeAnalyzer/inst/extdata/gFileOpen.m |only
rLakeAnalyzer-1.3/rLakeAnalyzer/inst/extdata/gFileSave.m |only
rLakeAnalyzer-1.3/rLakeAnalyzer/inst/extdata/gPivot.m |only
rLakeAnalyzer-1.3/rLakeAnalyzer/inst/extdata/misc.asv |only
rLakeAnalyzer-1.3/rLakeAnalyzer/inst/extdata/misc.m |only
rLakeAnalyzer-1.3/rLakeAnalyzer/inst/extdata/timeseriesaggregator.m |only
rLakeAnalyzer-1.4/rLakeAnalyzer/DESCRIPTION | 9
rLakeAnalyzer-1.4/rLakeAnalyzer/MD5 | 39 ++--
rLakeAnalyzer-1.4/rLakeAnalyzer/NAMESPACE | 7
rLakeAnalyzer-1.4/rLakeAnalyzer/R/lake.number.plot.R |only
rLakeAnalyzer-1.4/rLakeAnalyzer/R/load.data.R | 13 +
rLakeAnalyzer-1.4/rLakeAnalyzer/R/schmidt.plot.R |only
rLakeAnalyzer-1.4/rLakeAnalyzer/R/timeseries.functions.R | 97 ++++++++--
rLakeAnalyzer-1.4/rLakeAnalyzer/R/wtr.heatmap.layers.R |only
rLakeAnalyzer-1.4/rLakeAnalyzer/R/wtr.lineseries.R |only
rLakeAnalyzer-1.4/rLakeAnalyzer/R/wtr.plot.temp.R |only
rLakeAnalyzer-1.4/rLakeAnalyzer/README.md | 1
rLakeAnalyzer-1.4/rLakeAnalyzer/build |only
rLakeAnalyzer-1.4/rLakeAnalyzer/inst/doc |only
rLakeAnalyzer-1.4/rLakeAnalyzer/man/lake.number.plot.Rd |only
rLakeAnalyzer-1.4/rLakeAnalyzer/man/load.bathy.Rd | 2
rLakeAnalyzer-1.4/rLakeAnalyzer/man/load.ts.Rd | 6
rLakeAnalyzer-1.4/rLakeAnalyzer/man/schmidt.plot.Rd |only
rLakeAnalyzer-1.4/rLakeAnalyzer/man/ts.layer.temperature.Rd |only
rLakeAnalyzer-1.4/rLakeAnalyzer/man/ts.meta.depths.Rd | 12 -
rLakeAnalyzer-1.4/rLakeAnalyzer/man/wtr.heatmap.layers.Rd |only
rLakeAnalyzer-1.4/rLakeAnalyzer/man/wtr.lineseries.Rd |only
rLakeAnalyzer-1.4/rLakeAnalyzer/man/wtr.plot.temp.Rd |only
rLakeAnalyzer-1.4/rLakeAnalyzer/vignettes |only
30 files changed, 141 insertions(+), 45 deletions(-)