Package: tximport 1.40.0
Michael Love
tximport: Import and summarize transcript-level estimates for transcript- and gene-level analysis
Imports transcript-level abundance, estimated counts and transcript lengths, and summarizes into matrices for use with downstream gene-level analysis packages. Average transcript length, weighted by sample-specific transcript abundance estimates, is provided as a matrix which can be used as an offset for different expression of gene-level counts.
Authors:
tximport_1.40.0.tar.gz
tximport_1.40.0.zip(r-4.7)tximport_1.40.0.zip(r-4.6)tximport_1.40.0.zip(r-4.5)
tximport_1.40.0.tgz(r-4.6-any)tximport_1.40.0.tgz(r-4.5-any)
tximport_1.40.0.tar.gz(r-4.7-any)tximport_1.40.0.tar.gz(r-4.6-any)
tximport_1.40.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
tximport/json (API)
NEWS
| # Install 'tximport' in R: |
| install.packages('tximport', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/thelovelab/tximport/issues
On BioConductor:tximport-1.41.0(bioc 3.24)tximport-1.40.0(bioc 3.23)
dataimportpreprocessingrnaseqtranscriptomicstranscriptiongeneexpressionimmunooncologybioconductordeseq2
Last updated from:793a7843e7 (on RELEASE_3_23). Checks:1 ERROR, 9 OK. Indexed: no.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 216 | ||
| linux-devel-x86_64 | OK | 337 | ||
| source / vignettes | OK | 335 | ||
| linux-release-x86_64 | OK | 424 | ||
| macos-release-arm64 | OK | 154 | ||
| macos-oldrel-arm64 | OK | 228 | ||
| windows-devel | OK | 600 | ||
| windows-release | OK | 768 | ||
| windows-oldrel | OK | 626 | ||
| wasm-release | OK | 183 |
Exports:makeCountsFromAbundancesummarizeToGenetximport
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Tximport package: import transcript-level quantification data | tximport-package |
| Low-level function to make counts from abundance using matrices | makeCountsFromAbundance |
| Summarize estimated quantitites to gene-level | summarizeToGene summarizeToGene,list-method |
| Import transcript-level abundances and counts for transcript- and gene-level analysis packages | tximport |
