BioQC: Detect tissue heterogeneity in expression profiles with gene sets

BioQC performs quality control of high-throughput expression data based on tissue gene signatures

Author
Jitao David Zhang <jitao_david.zhang@roche.com>, with inputs from Laura Badi
Date of publication
None
Maintainer
Jitao David Zhang <jitao_david.zhang@roche.com>
License
LGPL (>=2)
Version
1.2.0

View on Bioconductor

Man pages

absLog10p
Absolute base-10 logarithm of p-values
entropy
Shannon entropy and related concepts
filterPmat
Filter rows of p-value matrix under the significance...
gini
Calculate Gini Index of a numeric vector
readGmt
Read in gene sets from a GMT file
wmwTest
Wilcoxon-Mann-Whitney rank sum test for high-throughput...

Files in this package

BioQC/DESCRIPTION
BioQC/Makefile
BioQC/NAMESPACE
BioQC/NEWS
BioQC/R
BioQC/R/entropy.R
BioQC/R/gini.R
BioQC/R/readGmt.R
BioQC/R/utils.R
BioQC/R/wmw-ranksum-Zar.R
BioQC/R/wmwTest.R
BioQC/build
BioQC/build/vignette.rds
BioQC/inst
BioQC/inst/Rscript
BioQC/inst/Rscript/bioqc.Rscript
BioQC/inst/doc
BioQC/inst/doc/bioqc.R
BioQC/inst/doc/bioqc.Rnw
BioQC/inst/doc/bioqc.pdf
BioQC/inst/extdata
BioQC/inst/extdata/exp.tissuemark.affy.roche.symbols.gmt
BioQC/inst/extdata/test.gct
BioQC/man
BioQC/man/absLog10p.Rd
BioQC/man/entropy.Rd
BioQC/man/filterPmat.Rd
BioQC/man/gini.Rd
BioQC/man/readGmt.Rd
BioQC/man/wmwTest.Rd
BioQC/src
BioQC/src/Makevars
BioQC/src/bioqc.c
BioQC/src/bioqc.h
BioQC/src/gini.c
BioQC/src/read_gmt.cpp
BioQC/src/read_gmt.h
BioQC/src/stat_rank.c
BioQC/src/stat_rank.h
BioQC/src/wmw_test_R.c
BioQC/tests
BioQC/tests/testthat
BioQC/tests/testthat.R
BioQC/tests/testthat/test-wmwTest.R
BioQC/vignettes
BioQC/vignettes/bioqc.Rnw