bam_stringtie_merge

Assemble transcripts from sorted BAM alignments using StringTie, then merge per-sample transcript GTFs into a unified annotation.

rna-seqtranscript-assemblytranscript-mergestringtiegtf

Description

Assemble transcripts from sorted BAM alignments using StringTie, then merge per-sample transcript GTFs into a unified annotation.

name

description

pattern

Sorted alignment files from short-read and long-read alignment.

Structure: [ val(meta), path(srbam), path(lrbam) ]

*.bam

Mode in which to run StringTie.

Structure: [ val(mode) ]

Reference gene annotation (GTF) for guided assembly and merge.

Structure: [ val(meta), path(gtf) ]

*.gtf

name

description

pattern

Merged transcript annotation produced by StringTie –merge.
Structure: [ val(meta), path(gtf) ]

*.gtf