Difference between revisions of "Read counter (analysis)"

Latest revision as of 18:15, 9 December 2020

Analysis title: Read counter
Provider: Institute of Systems Biology
Class: ReadCounter
Plugin: biouml.plugins.ensembl (Support for Ensembl database and Ensembl-specific analyses)

Count reads that overlap with specified genes and output a table with genes and respective read counts.

@@ Line 1: / Line 1: @@
 ;Analysis title
-:[[File:Default-analysis-icon.png]] Read counter
+:[[File:RNA-seq-Read-counter-icon.png]] Read counter
 ;Provider
 :[[Institute of Systems Biology]]
 ;Class
-:{{Class|ru.biosoft.bsa.analysis.ReadCounter}}
+:{{Class|biouml.plugins.ensembl.analysis.ReadCounter}}
 ;Plugin
-:[[Ru.biosoft.bsa (plugin)|ru.biosoft.bsa (Bio-sequences analyses plugin)]]
+:[[Biouml.plugins.ensembl (plugin)|biouml.plugins.ensembl (Support for Ensembl database and Ensembl-specific analyses)]]
 ==== Description ====
-Count reads in genes
+Count reads that overlap with specified genes and output a table with genes and respective read counts.
 ==== Parameters: ====
-* '''trackPath''' – trackPath
+* '''Track with reads''' – Track with reads
-* '''genesTablePath''' – genesTablePath
+* '''Genes''' – Table with genes to map reads
-* '''geneTrack''' – geneTrack
+* '''Ensembl version''' – Ensembl version to take gene track from
-* '''outputTablePath''' – outputTablePath
+* '''Output table''' – Output table with genes and read counts
 [[Category:Analyses]]
-[[Category:BSA (analyses group)]]
+[[Category:RNA-seq (analyses group)]]
 [[Category:ISB analyses]]
 [[Category:Autogenerated pages]]