EBSeqHMM: Bayesian analysis for identifying gene or isoform expression changes in ordered RNA-seq experiments

The EBSeqHMM package implements an auto-regressive hidden Markov model for statistical analysis in ordered RNA-seq experiments (e.g. time course or spatial course data). The EBSeqHMM package provides functions to identify genes and isoforms that have non-constant expression profile over the time points/positions, and cluster them into expression paths.

AuthorNing Leng, Christina Kendziorski
Date of publicationNone
MaintainerNing Leng <lengning1@gmail.com>
LicenseArtistic-2.0
Version1.8.0

View on Bioconductor

Files

EBSeqHMM/DESCRIPTION
EBSeqHMM/NAMESPACE
EBSeqHMM/NEWS
EBSeqHMM/R
EBSeqHMM/R/EBHMMNBMultiEM_2chain.R EBSeqHMM/R/EBHMMNBfun.R EBSeqHMM/R/EBHMMNBfunForMulti.R EBSeqHMM/R/EBSeqHMMTest.R EBSeqHMM/R/EBTest_ext.R EBSeqHMM/R/GetAllPaths.R EBSeqHMM/R/GetConfidentCalls.R EBSeqHMM/R/GetDECalls.R EBSeqHMM/R/LikefunNBHMM.R EBSeqHMM/R/PlotExp.R EBSeqHMM/R/beta.mom.R EBSeqHMM/R/f0.R
EBSeqHMM/build
EBSeqHMM/build/vignette.rds
EBSeqHMM/data
EBSeqHMM/data/GeneExampleData.rda
EBSeqHMM/data/IsoExampleList.rda
EBSeqHMM/demo
EBSeqHMM/demo/00Index
EBSeqHMM/demo/EBSeqHMM.R
EBSeqHMM/inst
EBSeqHMM/inst/doc
EBSeqHMM/inst/doc/EBSeqHMM_vignette.R
EBSeqHMM/inst/doc/EBSeqHMM_vignette.Rnw
EBSeqHMM/inst/doc/EBSeqHMM_vignette.pdf
EBSeqHMM/man
EBSeqHMM/man/EBHMMNBMultiEM_2chain.Rd EBSeqHMM/man/EBHMMNBfun.Rd EBSeqHMM/man/EBHMMNBfunForMulti.Rd EBSeqHMM/man/EBSeqHMM-package.Rd EBSeqHMM/man/EBSeqHMMTest.Rd EBSeqHMM/man/EBTest_ext.Rd EBSeqHMM/man/GeneExampleData.Rd EBSeqHMM/man/GetAllPaths.Rd EBSeqHMM/man/GetConfidentCalls.Rd EBSeqHMM/man/GetDECalls.Rd EBSeqHMM/man/IsoExampleList.Rd EBSeqHMM/man/LikefunNBHMM.Rd EBSeqHMM/man/PlotExp.Rd EBSeqHMM/man/beta.mom.Rd EBSeqHMM/man/f0.Rd
EBSeqHMM/vignettes
EBSeqHMM/vignettes/Diag_EBSeqHMM.pdf
EBSeqHMM/vignettes/EBSeqHMM_vignette.Rnw
EBSeqHMM/vignettes/lengetal.bib
EBSeqHMM/vignettes/natbib.bst
EBSeqHMM/vignettes/natbib.sty

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