Package: SplicingFactory 1.15.0

Endre Sebestyen

SplicingFactory: Splicing Diversity Analysis for Transcriptome Data

The SplicingFactory R package uses transcript-level expression values to analyze splicing diversity based on various statistical measures, like Shannon entropy or the Gini index. These measures can quantify transcript isoform diversity within samples or between conditions. Additionally, the package analyzes the isoform diversity data, looking for significant changes between conditions.

Authors:Peter A. Szikora [aut], Tamas Por [aut], Endre Sebestyen [aut, cre]

SplicingFactory_1.15.0.tar.gz
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SplicingFactory.pdf |SplicingFactory.html
SplicingFactory/json (API)
NEWS

# Install 'SplicingFactory' in R:
install.packages('SplicingFactory', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/esebesty/splicingfactory/issues

Datasets:

On BioConductor:SplicingFactory-1.15.0(bioc 3.21)SplicingFactory-1.14.0(bioc 3.20)

transcriptomicsrnaseqdifferentialsplicingalternativesplicingtranscriptomevariantgini-indexrna-seqshannon-entropysimpson-indexsplicing

5.20 score 4 stars 1 scripts 172 downloads 6 exports 28 dependencies

Last updated 3 months agofrom:ac49427bf6. Checks:7 OK, 1 WARNING. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKJan 26 2025
R-4.5-winOKJan 26 2025
R-4.5-macWARNINGJan 26 2025
R-4.5-linuxOKJan 26 2025
R-4.4-winOKJan 26 2025
R-4.4-macOKJan 26 2025
R-4.3-winOKJan 26 2025
R-4.3-macOKJan 26 2025

Exports:calculate_differencecalculate_diversitycalculate_entropycalculate_ginicalculate_inverse_simpsoncalculate_simpson

Dependencies:abindaskpassBiobaseBiocGenericscrayoncurlDelayedArraygenericsGenomeInfoDbGenomeInfoDbDataGenomicRangeshttrIRangesjsonlitelatticeMatrixMatrixGenericsmatrixStatsmimeopensslR6S4ArraysS4VectorsSparseArraySummarizedExperimentsysUCSC.utilsXVector

SplicingFactory

Rendered fromSplicingFactory.Rmdusingknitr::rmarkdownon Jan 26 2025.

Last update: 2021-07-17
Started: 2020-06-13