Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Papers: 10.12688/f1000research.15398.3
https://doi.org/10.12688/f1000research.15398.3
Cited by: 53
Author(s): Michael I. Love, Charlotte Soneson, Rob Patro
Published: over 5 years ago
Software Mentions 16
bioconductor: BitSeq
Papers that mentioned: 28bioconductor: countsimQC
Compare Characteristic Features of Count Data SetsPapers that mentioned: 6
bioconductor: DESeq2
Differential gene expression analysis based on the negative binomial distributionPapers that mentioned: 9,583
bioconductor: DRIMSeq
Differential transcript usage and tuQTL analyses with Dirichlet-multinomial model in RNA-seqPapers that mentioned: 17
bioconductor: EBSeq
An R package for gene and isoform differential expression analysis of RNA-seq dataPapers that mentioned: 261
bioconductor: edgeR
Empirical Analysis of Digital Gene Expression Data in RPapers that mentioned: 6,568
bioconductor: iCOBRA
Comparison and Visualization of Ranking and Assignment MethodsPapers that mentioned: 5
bioconductor: IsoformSwitchAnalyzeR
Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- and long-read RNA-seq dataPapers that mentioned: 16
bioconductor: SGSeq
Splice event prediction and quantification from RNA-seq dataPapers that mentioned: 14
bioconductor: stageR
stageR: stage-wise analysis of high throughput gene expression data in RPapers that mentioned: 6
bioconductor: tximport
Import and summarize transcript-level estimates for transcript- and gene-level analysisPapers that mentioned: 367
pypi: kallisto
The Kallisto software enables the efficient calculation of atomic features that can be used within a quantitative structure-activity relationship (QSAR) approach. Furthermore, several modelling helpers are implemented.Papers that mentioned: 307