Nextflow Modules
Showing module(s) with keyword "alternative splicing"
| Module | Kind | Keywords | Description |
|---|---|---|---|
| nf-core/dexseq/count | Process | dexseq exon count alternative splicing differential exon usage | Count the reads overlapping the exonic counting bins of a DEXSeq annotation |
| nf-core/dexseq/dtu | Process | dexseq transcript differential transcript usage alternative splicing rna-seq | Test a contrast for differential transcript usage with DEXSeq, from a table of transcript counts |
| nf-core/dexseq/exon | Process | dexseq exon differential exon usage alternative splicing rna-seq | Test a contrast for differential exon usage with DEXSeq, from the exon counts of dexseq/count |
| nf-core/dexseq/prepareannotation | Process | dexseq exon annotation gtf alternative splicing differential exon usage | Flatten a GTF annotation into the exonic counting bins used by DEXSeq |
| nf-core/leafcutter/differentialsplicing | Process | alternative splicing differential splicing RNA-seq intron usage | Perform differential splicing analysis to identify junctions with significant changes in splicing between conditions |
| nf-core/misopy/index | Process | misopy index gff alternative splicing | Build an indexed representation of a GFF for efficient retrieval of genes |
| nf-core/rmats/prep | Process | splicing RNA-Seq alternative splicing exon intron rMATS | MATS is a computational tool to detect differential alternative splicing events from RNA-Seq data. |
| nf-core/suppa/clusterevents | Process | alternative splicing clustering suppa genomics | Cluster events based on PSI values and significantly differentially spliced events using SUPPA2. |
| nf-core/suppa/diffsplice | Process | alternative splicing differential splicing suppa genomics | Perform differential splicing analysis using SUPPA. |
| nf-core/suppa/generateevents | Process | suppa alternative splicing genomics | Generates alternative splicing events from a GTF file using SUPPA. |
| nf-core/suppa/psiperevent | Process | alternative splicing suppa psi genomics | Calculate PSI values for alternative splicing events using SUPPA |