Package: splicelogic 1.1.2
Beatriz Campillo
splicelogic: splicelogic: differential transcripts to splice events
Translate differential transcript usage results into discrete splice events.
Authors:
splicelogic_1.1.2.tar.gz
splicelogic_1.1.2.zip(r-4.7)splicelogic_1.1.2.zip(r-4.6)splicelogic_1.1.2.zip(r-4.5)
splicelogic_1.1.2.tgz(r-4.6-any)splicelogic_1.1.2.tgz(r-4.5-any)
splicelogic_1.1.2.tar.gz(r-4.7-any)splicelogic_1.1.2.tar.gz(r-4.6-any)
splicelogic_1.1.2.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
splicelogic/json (API)
NEWS
| # Install 'splicelogic' in R: |
| install.packages('splicelogic', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/thelovelab/splicelogic/issues
Pkgdown/docs site:https://thelovelab.github.io
On BioConductor:splicelogic-1.1.0(bioc 3.24)splicelogic-1.0.0(bioc 3.23)
alternativesplicingdifferentialsplicingtranscriptomicsrnaseqlongreadannotationfunctionalgenomicsdtusplicing
Last updated from:c11b5e52fd. Checks:1 NOTE, 9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 180 | ||
| linux-devel-x86_64 | OK | 277 | ||
| source / vignettes | OK | 263 | ||
| linux-release-x86_64 | OK | 279 | ||
| macos-release-arm64 | OK | 176 | ||
| macos-oldrel-arm64 | OK | 199 | ||
| windows-devel | OK | 181 | ||
| windows-release | OK | 181 | ||
| windows-oldrel | OK | 187 | ||
| wasm-release | OK | 156 |
Exports:create_mock_datafind_a3ssfind_a5ssfind_all_eventsfind_iefind_mxefind_rifind_segenerate_a3ssgenerate_a5ssgenerate_mxegenerate_rigenerate_seprepare_exonsprepare_exons_by_partitionpreprocess
Dependencies:abindaskpassBHBiobaseBiocBaseUtilsBiocGenericsBiocIOBiocParallelBiostringsbitopscigarilloclicodetoolscpp11crayoncurlDelayedArraydplyrformatRfutile.loggerfutile.optionsgenericsGenomicAlignmentsGenomicRangesgluehttrIRangesjsonlitelambda.rlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmimeopensslpillarpkgconfigplyrangesR6RCurlrestfulrRhtslibrjsonrlangRsamtoolsrtracklayerS4ArraysS4VectorsSeqinfosnowSparseArraySummarizedExperimentsystibbletidyselectutf8vctrswithrXMLXVectoryaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| splicelogic: differential transcripts to splice events | splicelogic-package splicelogic |
| Create mock GRanges data for splicing event testing | create_mock_data |
| Find splice events from annotated exons | find_a3ss find_a5ss find_all_events find_events find_ie find_mxe find_ri find_se |
| Generate mock splice events in a GRanges object | generate_a3ss generate_a5ss generate_events generate_mxe generate_ri generate_se |
| Prepare exon ranges from a TxDb and DTU results table | prepare_exons |
| Prepare exons from two transcript partitions | prepare_exons_by_partition |
| Preprocess input GRanges object for splicing event calculation | preprocess |
