BuildASiteOffsetTable (analysis)

Analysis title

BuildASiteOffsetTable

Provider

Institute of Systems Biology

Class

BuildASiteOffsetTable

Plugin

biouml.plugins.riboseq (RiboSeq Experiment)

Description

Build A site offset table on the length of the fragment

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
• A site offset Table – table: length - offset