Transcriptome mappability (analysis)

Analysis title

Transcriptome mappability

Provider

Institute of Systems Biology

Class

TranscriptomeMappability

Plugin

biouml.plugins.riboseq (RiboSeq Experiment)

Description

Compute transcriptome mappability

Parameters:

• Minimal unique length – Minimal unique length file, produced by 'Transcriptome minimal unique length' analysis
• Read length distribution – Table with ids corresponding to read length and 'Count' column
• Transcript subset – Use only transcripts present in this table
• Mappability profile – Resulting mappability profile
• Transcript mappable length – Number of mappable positions for each transcript
• CDS mappable length – Number of mappable position in coding sequence
• Min CDS overlap – Min CDS overlap
• 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