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.

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

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Files

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

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