Difference between revisions of "ComputeTranscriptProfile (analysis)"

Revision as of 12:21, 25 August 2015

Analysis title

ComputeTranscriptProfile

Provider

Institute of Systems Biology

Class

ComputeTranscriptProfile

Plugin

biouml.plugins.riboseq (RiboSeq Experiment)

Description

Compute footprint profile for transcripts

Parameters:

• BAM files – BAM files with genomic alignments
• Annotation source – Source of gene annotation
• Transcripts annotation track – Track with transcripts annotation in BED format
• Ensembl – Ensembl database version
• Transcript subset – Subset of transcripts used in this analysis
• Transcript overhangs – Transcript overhangs
• Strand specific – In strand specific protocol reads can come only from positive strand of transcript
• Ribosome A-site offset table – Table with 2 columns: 'Length' and 'Offset'
• Min transcript footprints – Minimal number of footprints in transcript
• Output track – Resulting track with transcript profiles