Isoform TE (analysis)

Analysis title

Isoform TE

Provider

Institute of Systems Biology

Class

IsoformTEAnalysis

Plugin

biouml.plugins.riboseq (RiboSeq Experiment)

Description

Translation efficency of splice isoforms.

Parameters:

• Ribo-seq alignments – Alignments of ribo-seq reads to the set of coding sequences, should include unmapped reads and sorted by read name
• mRNA-seq alignments – Alignments of mRNA-seq reads to the set of transcripts, should include unmapped reads and sorted by read name
• Transcript set – Transcript set
  • Annotation source – Source of gene annotation
  • Transcripts annotation track – Track with transcripts annotation in BED format
  • Genome sequence – Collection of chromosomal sequences
  • Ensembl – Ensembl database version
  • Transcript subset – Subset of transcripts used in this analysis
  • GTF file – GTF file
• cdsOverhangs – cdsOverhangs
• Number of samples (expert) – Number of samples taken by gibbs sampler
• Output table – Output table