STAR-Fusion

Trinity — de novo transcriptome assembler for RNA-seq data. Reconstructs full-length transcript isoforms without a reference genome using three sequential modules: Inchworm (greedy k-mer assembly), Ch

3 shared topics • 1 shared operation

Detects gene fusions and other structural rearrangements from RNA-Seq data.

3 shared topics

DRIMSeq is a Bioconductor R package for Differential Transcript Usage (DTU) analysis using a Dirichlet-multinomial distribution to model transcript-level count proportions. Tests whether relative tran

3 shared topics

Use when working with stageR, the Bioconductor R package for stage-wise testing in RNA-seq transcriptomics. Covers two-stage testing workflows for differential expression (DESeq2/edgeR/limma-voom) and

3 shared topics

gffread -- GFF/GTF utility for filtering, converting, and extracting sequences from genome annotation files. Converts between GFF3 and GTF formats, extracts transcript (FASTA) and protein sequences fr

2 shared topics • 1 shared operation