Difference between revisions of "Track coverage (analysis)"

Latest revision as of 18:07, 14 June 2013

Calculates the coverage of given track

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 – Specify path to folder containing sequences if 'Custom' sequences source is selected
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

@@ Line 1: / Line 1: @@
 ;Analysis title
-:[[File:BSA-Track-coverage-icon.png]] Track coverage
+:[[File:Default-analysis-icon.png]] Track coverage
 ;Provider
 :[[Institute of Systems Biology]]
+;Class
+:{{Class|ru.biosoft.bsa.analysis.TrackCoverageAnalysis}}
 ;Plugin
-:ru.biosoft.bsa (Bio-sequences analyses plugin)
+:[[Ru.biosoft.bsa (plugin)|ru.biosoft.bsa (Bio-sequences analyses plugin)]]
 ==== Description ====
@@ Line 14: / Line 16: @@
 * '''Sequences''' – Collection of sequences
 ** '''Sequences source''' – Select database to get sequences from or <nowiki>'</nowiki>Custom<nowiki>'</nowiki> to specify sequences location manually
-** '''Sequence collection''' – Sequence collection
+** '''Sequence collection''' – Specify path to folder containing sequences if <nowiki>'</nowiki>Custom<nowiki>'</nowiki> sequences source is selected
-** '''Genome ID string''' – Something like <nowiki>'</nowiki>hg18<nowiki>'</nowiki> or <nowiki>'</nowiki>mm6<nowiki>'</nowiki>
 * '''Window size''' – Size of the window to average the coverage
 * '''Step''' – Number of bp to step (at least 1000)