Difference between revisions of "Track coverage (analysis)"

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;Provider
 
;Provider
 
:[[Institute of Systems Biology]]
 
:[[Institute of Systems Biology]]
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:{{Class|ru.biosoft.bsa.analysis.TrackCoverageAnalysis}}
 
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:[[Ru.biosoft.bsa (plugin)|ru.biosoft.bsa (Bio-sequences analyses plugin)]]
 
:[[Ru.biosoft.bsa (plugin)|ru.biosoft.bsa (Bio-sequences analyses plugin)]]

Revision as of 11:14, 31 May 2013

Analysis title
File:BSA-Track-coverage-icon.png Track coverage
Provider
Institute of Systems Biology
Class
TrackCoverageAnalysis
Plugin
ru.biosoft.bsa (Bio-sequences analyses plugin)

Description

Calculates the coverage of given track

Parameters:

  • Input track – Track to calculate coverage for
  • Sequences – Collection of sequences
    • Sequences source – Select database to get sequences from or 'Custom' to specify sequences location manually
    • Sequence collection – Sequence collection
    • Genome ID string – Something like 'hg18' or 'mm6'
  • Window size – Size of the window to average the coverage
  • Step – Number of bp to step (at least 1000)
  • Output empty intervals – When checked, intervals without single site will appear in the output table as well
  • Output table – Path to the output table
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