rxSeq: Combined Total and Allele Specific Reads Sequencing Study

Analysis of combined total and allele specific reads from the reciprocal cross study with RNA-seq data.

Install the latest version of this package by entering the following in R:
install.packages("rxSeq")
AuthorVasyl Zhabotynsky [aut, cre], Wei Sun [aut], Fei Zou [aut]
Date of publication2016-12-01 12:45:14
MaintainerVasyl Zhabotynsky <vasyl@unc.edu>
LicenseGPL (>= 2)
Version0.99.3

View on CRAN

Files

inst
inst/doc
inst/doc/rxSeq.pdf
inst/doc/rxSeq.Rnw
inst/doc/rxSeq.R
NAMESPACE
data
data/dt.X.rda
data/dt.A.rda
R
R/get.better.R R/nLogLik.trecase.A.R R/ll.toRCI.X.R R/trecase.sex.X.R R/ll.toRCI.b0.A1.R R/trecase.full.A.R R/ll.jRCI.sex.X.R R/ll.toRCI.b0.X.R R/ll.aRC.theta.A1.R R/ll.jRCI.A.cons1.R R/trec.dev.X.R R/ll.jRCI.A.R R/trec.dom.A.R R/ll.jRCI.b0.A.R R/ll.toRCI.sex.A.R R/input.checks.X.R R/ll.jRCI.trec.ase.X.R R/proc.trecase.X.R R/ll.aRC.R R/logBB.R R/nLogLik.trecase.X.R R/ll.jRCI.b1.A2.R R/ll.toRCI.sex.b0.A.R R/trecase.dom.A.R R/trec.b1.A.R R/trec.sex.dom.A.R R/ll.jRCI.sex.b1.A.R R/ll.jRCI.sex.b0.X.R R/ll.jRCI.A1.R R/ll.jRCI.ase.b0.X.R R/proc.trec.A.R R/ll.tRCI.iphi.A.R R/trec.sex.A.R R/readCounts.R R/ll.jRCI.ase.b0.A.R R/trec.sex.b1.A.R R/ll.jRCI.ase.b0.A1.R R/trec.sex.b0.A.R R/nLogLik.trec.A.R R/ll.toRCI.iphi.A.R R/trecase.b0.A.R R/get.tausB.R R/trecase.ase.b0.X.R R/loglikNB0.R R/trecase.sex.A.R R/ll.jRCI.A.cons.R R/trec.sex.X.R R/ll.jRCI.b1.A1.R R/ll.toRCI.sex.X.R R/loglikNB2.R R/ll.tRCI.iphi.X.R R/trecase.full.A.cons.R R/ll.aRC.X.R R/trecase.b1.X.R R/ll.jRCI.trec.ase.A1.R R/trecase.b0.X.R R/ll.toRCI.iphi.X.R R/test.R R/loglikNB.R R/ll.jRCI.sex.b0.A.R R/simRX.R R/ll.jRCI.sex.A.R R/trecase.trec.ase.A.R R/ll.jRCI.b1.X.R R/trecase.dom.X.R R/trecase.sex.b0.X.R R/ll.toRCI.A.R R/trecase.trec.ase.X.R R/process.R R/ll.tRCI.A.R R/trecase.b1.A.R R/ll.jRCI.b0.X.R R/trec.full.A.R R/trec.b0.A.R R/ll.jRCI.ase.b0.A2.R R/ll.jRCI.b0.A2.R R/ll.jRCI.b1.A.R R/ll.aRC.theta.A.R R/trecase.ase.b0.A.R R/loglikNB1.R R/trec.full.X.R R/ll.toRCI.b0.A.R R/nLogLik.trec.X.R R/trecase.full.X.R R/trec.b1.X.R R/get.tauB.R R/get.inits.R R/trecase.sex.dom.A.R R/trec.sex.b0.X.R R/ll.tRCI.X.R R/ll.aRC.theta.A2.R R/proc.trecase.A.R R/proc.trec.X.R R/ll.jRCI.X.R R/nLogLik.R R/ll.jRCI.A2.R R/ll.toRCI.b0.A2.R R/trec.dom.X.R R/ll.jRCI.trec.ase.A.R R/ll.jRCI.A.cons2.R R/ll.jRCI.b0.A1.R R/input.checks.A.R R/trecase.dev.X.R R/ll.aRC.theta.X.R R/trecase.sex.b0.A.R R/ll.jRCI.trec.ase.A2.R R/trec.b0.X.R R/trecase.sex.b1.A.R R/ll.toRCI.sex.b0.X.R
vignettes
vignettes/rxSeq.Rnw
MD5
build
build/vignette.rds
DESCRIPTION
man
man/rcX.Rd man/rcA.Rd man/trecase.X.out.Rd man/trecase.A.out.Rd man/nLogLik.Rd man/data.X.Rd man/readCounts.Rd man/simRX.Rd man/data.A.Rd man/get.tausB.Rd man/process.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.