Difference between revisions of "ComputeProfileSums (analysis)"

Revision as of 19:01, 13 February 2017

Analysis title

ComputeProfileSums

Provider

Institute of Systems Biology

Class

ComputeProfileSums

Plugin

biouml.plugins.riboseq (RiboSeq Experiment)

Description

Compute sums of footprint profile

Parameters:

• BAM files – BAM files with genomic alignments
• 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
• 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'
• Profile sums – Profile sums
• Result path – Path to resulting table