Isoform TE (analysis)

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Analysis title
Default-analysis-icon.png 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
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