bitseq
Bayesian Inference of Transcripts from Sequencing Data
Command lineScience
Not tested on a device yet. What that means
Commands in the package
biocUpdatecheckTRconvertSamplesestimateDEestimateExpressionestimateHyperParestimateVBExpressionextractSamplesextractTranscriptInfogetCountsgetFoldChangegetGeneExpressiongetPPLRgetVariancegetWithinGeneExpressionparseAlignmenttransposeLargeFile
About bitseq
From Debian's package description
BitSeq is an application for inferring expression levels of individual transcripts from sequencing (RNA-Seq) data and estimating differential expression (DE) between conditions. An advantage of this approach is the ability to account for both technical uncertainty and intrinsic biological variance in order to avoid false DE calls. The technical contribution to the uncertainty comes both from finite read-depth and the possibly ambiguous mapping of reads to multiple transcripts.
From Debian's description of the bitseq package, under that package's license.
Dependencies
Depends on
libc6libgcc-s1libgomp1libstdc++6zlib1gpython3python3-numpy
Related apps
- ea-utilscommand-line tools for processing biological sequencing dataCommand line
- subreadtoolkit for processing next-gen sequencing dataCommand line
- rsemRNA-Seq by Expectation-MaximizationCommand line
- bali-phyBayesian Inference of Alignment and PhylogenyCommand line
- mrbayesBayesian Inference of PhylogenyCommand line
- salmonwicked-fast transcript quantification from RNA-seq dataCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the bitseq package, under that package's license.
- Description: Debian's description of the bitseq package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
More in About the catalog.