Title: Full Factorials, Orthogonal Arrays and Base Utilities for DoE
Packages
Description: Package \pkg{DoE.base} creates full factorial experimental designs and designs based on orthogonal arrays for (industrial) experiments. Additionally, it provides utility functions for the class \code{design}, which is also used by other packages for designed experiments.
Author: Ulrike Groemping [aut, cre],
Boyko Amarov [ctb],
Hongquan Xu [ctb]
Maintainer: Ulrike Groemping
Diff between DoE.base versions 0.26-3 dated 2014-09-29 and 0.27 dated 2015-03-28
DESCRIPTION | 14 +++---- MD5 | 68 +++++++++++++++++++------------------- NAMESPACE | 5 ++ R/DesignAccessors.r | 27 +++++++++++++-- R/GRind.R | 19 ++++++++-- R/fac.design.R | 71 +++++++++++++++++++++++++++++++--------- R/fastlengths.R | 10 +++-- R/halfnormal.R | 57 +++++++++++++++++++------------- R/length2.R | 6 --- R/lengths.R |only R/oa.design.R | 13 ++++++- R/planor2design.r | 2 + R/plot.design.R | 23 +++++++++++- R/printandsummary.design.R | 4 +- R/rerandomize.R | 52 +++++++++++++++++++++++++++-- R/show.oas.R | 28 ++++++++++++--- R/sysdata.rda |binary R/utilities.R | 59 +++++++++++++++++++++++++++++++++ inst/NEWS | 62 +++++++++++++++++++++++++++++++++- man/GWLP.Rd | 8 ++-- man/VSGFS.Rd |only man/class-design.Rd | 8 +++- man/fac.design.Rd | 15 ++++++-- man/generalized.word.length.Rd | 50 +++++++++++++++++----------- man/getblock.Rd | 16 +++++++-- man/halfnormal.Rd | 47 ++++++++++++++++---------- man/oa.design.Rd | 8 +++- man/oacat.Rd | 22 ++++++++++-- man/planor2design.Rd | 4 +- man/plot.design.Rd | 13 +++---- man/show.oas.Rd | 50 ++++++++++++++++++++++------ tests/test_aggregate.Rout.save | 12 ++++-- tests/test_colorder.Rout.save | 12 ++++-- tests/test_cross.Rout.save | 12 ++++-- tests/test_qua.design.Rout.save | 15 +++++--- tests/test_reshape.Rout.save | 15 +++++--- 36 files changed, 624 insertions(+), 203 deletions(-)
Title: Weighted Correlation Network Analysis
Description: Functions necessary to perform Weighted Correlation Network Analysis on high-dimensional data. Includes functions for rudimentary data cleaning, construction of correlation networks, module identification, summarization, and relating of variables and modules to sample traits. Also includes a number of utility functions for data manipulation and visualization.
Author: Peter Langfelder
Maintainer: Peter Langfelder
Diff between WGCNA versions 1.43 dated 2015-01-15 and 1.46 dated 2015-03-28
WGCNA-1.43/WGCNA/R/smaFunctions-Rna.R |only WGCNA-1.43/WGCNA/R/smaFunctions.R |only WGCNA-1.43/WGCNA/man/na.Rd |only WGCNA-1.43/WGCNA/man/plotCor.Rd |only WGCNA-1.43/WGCNA/man/plotMat.Rd |only WGCNA-1.43/WGCNA/man/rgcolors.func.Rd |only WGCNA-1.43/WGCNA/man/stat.diag.da.Rd |only WGCNA-1.43/WGCNA/man/stats.bwss.Rd |only WGCNA-1.46/WGCNA/Changelog | 33 ++++ WGCNA-1.46/WGCNA/DESCRIPTION | 10 - WGCNA-1.46/WGCNA/MD5 | 41 ++--- WGCNA-1.46/WGCNA/NAMESPACE | 3 WGCNA-1.46/WGCNA/R/Functions.R | 50 ++++-- WGCNA-1.46/WGCNA/R/blockwiseModulesC.R | 6 WGCNA-1.46/WGCNA/R/consensusTOM.R | 8 - WGCNA-1.46/WGCNA/R/empiricalBayesLM.R |only WGCNA-1.46/WGCNA/R/exportFunctions.R | 15 +- WGCNA-1.46/WGCNA/R/heatmapWithLegend.R | 6 WGCNA-1.46/WGCNA/man/WGCNA-package.Rd | 11 - WGCNA-1.46/WGCNA/man/bicovWeights.Rd |only WGCNA-1.46/WGCNA/man/empiricalBayesLM.Rd |only WGCNA-1.46/WGCNA/man/labeledHeatmap.Rd | 15 +- WGCNA-1.46/WGCNA/man/qvalue.Rd | 2 WGCNA-1.46/WGCNA/src/corFunctions-common.c | 76 +++++----- WGCNA-1.46/WGCNA/src/corFunctions-common.h | 10 - WGCNA-1.46/WGCNA/src/corFunctions-unified.c | 205 +++++++++++++++------------- WGCNA-1.46/WGCNA/src/networkFunctions.c | 2 27 files changed, 293 insertions(+), 200 deletions(-)
Title: Unconditional Exact Test
Description: Performs unconditional exact tests and power calculations for 2x2 contingency
tables. Unconditional exact tests are often more powerful than conditional exact tests and asymptotic tests.
Author: Peter Calhoun
Maintainer: Peter Calhoun
Diff between Exact versions 1.4 dated 2013-07-22 and 1.5 dated 2015-03-28
DESCRIPTION | 11 - MD5 | 16 - R/binomialCode.R | 416 +++++++++++++++++++++++++-------------------------- R/exact.test.R | 134 ++++++++++++---- R/fisher.2x2.R | 37 ++-- R/multinomialCode.R | 209 ++++++++++++------------- R/power.exact.test.R | 113 ++++++------- man/Exact-package.Rd | 12 - man/exact.test.Rd | 9 - 9 files changed, 514 insertions(+), 443 deletions(-)