Difference between revisions of "Transcriptome mappability (analysis)"

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==== Description ====
 
==== Description ====
Compute transcriptome mappability
+
Compute transcriptome mappability.
  
 
==== Parameters: ====
 
==== Parameters: ====
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[[Category:Analyses]]
 
[[Category:Analyses]]
[[Category:RiboSeq (analyses group)]]
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[[Category:Sequence mappability (analyses group)]]
 
[[Category:ISB analyses]]
 
[[Category:ISB analyses]]
 
[[Category:Autogenerated pages]]
 
[[Category:Autogenerated pages]]

Latest revision as of 18:15, 9 December 2020

Analysis title
Default-analysis-icon.png Transcriptome mappability
Provider
Institute of Systems Biology
Class
TranscriptomeMappability
Plugin
biouml.plugins.riboseq (RiboSeq Experiment)

[edit] Description

Compute transcriptome mappability.

[edit] 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
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