GenRank: Candidate gene prioritization based on convergent evidence

Methods for ranking genes based on convergent evidence obtained from multiple independent evidence layers. This package adapts three methods that are popular for meta-analysis.

Author
Chakravarthi Kanduri
Date of publication
None
Maintainer
Chakravarthi Kanduri <chakra.kanduri@gmail.com>
License
Artistic-2.0
Version
1.2.0
URLs

View on Bioconductor

Man pages

CombP
Convergent evidence based on combined p-values.
ComputeCE
Convergent Evidence (CE) scores of genes.
ComputeRP
Convergent evidence based on rank product method.

Files in this package

GenRank/DESCRIPTION
GenRank/NAMESPACE
GenRank/R
GenRank/R/add_genes.R
GenRank/R/comb_pval.R
GenRank/R/compute_CE.R
GenRank/R/compute_RP.R
GenRank/R/compute_pfp.R
GenRank/R/generate_permutation_RP.R
GenRank/R/rank_genes.R
GenRank/build
GenRank/build/vignette.rds
GenRank/inst
GenRank/inst/NEWS
GenRank/inst/doc
GenRank/inst/doc/GenRank_Vignette.R
GenRank/inst/doc/GenRank_Vignette.Rmd
GenRank/inst/doc/GenRank_Vignette.html
GenRank/inst/extdata
GenRank/inst/extdata/CE_RP_toydata.txt
GenRank/inst/extdata/CE_RP_toydata_small.txt
GenRank/inst/extdata/CE_toydata.txt
GenRank/inst/extdata/CombP_toydata.txt
GenRank/inst/extdata/CombP_toydata_small.txt
GenRank/inst/extdata/RP_toydata.txt
GenRank/man
GenRank/man/CombP.Rd
GenRank/man/ComputeCE.Rd
GenRank/man/ComputeRP.Rd
GenRank/tests
GenRank/tests/testthat
GenRank/tests/testthat.R
GenRank/tests/testthat/test_CombP.R
GenRank/tests/testthat/test_compute_CE.R
GenRank/tests/testthat/test_compute_RP.R
GenRank/vignettes
GenRank/vignettes/CE_scoring.pdf
GenRank/vignettes/CE_scoring.png
GenRank/vignettes/Figure.png
GenRank/vignettes/Figure1.png
GenRank/vignettes/GenRank_Vignette.Rmd
GenRank/vignettes/custom.css