Difference between revisions of "Common and IPS scores correlation (analysis)"

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** '''Sequences source''' – Select database to get sequences from or <nowiki>'</nowiki>Custom<nowiki>'</nowiki> to specify sequences location manually
 
** '''Sequences source''' – Select database to get sequences from or <nowiki>'</nowiki>Custom<nowiki>'</nowiki> to specify sequences location manually
 
** '''Sequence collection''' – Specify path to folder containing sequences if <nowiki>'</nowiki>Custom<nowiki>'</nowiki> sequences source is selected
 
** '''Sequence collection''' – Specify path to folder containing sequences if <nowiki>'</nowiki>Custom<nowiki>'</nowiki> sequences source is selected
* '''Input track''' – Select input ChIP-seq track (must be the result of <nowiki>'</nowiki>Merge binding regions for cell-lines<nowiki>'</nowiki> analysis)
+
* '''Input track''' – Select input ChIP-seq track (must be the result of MACS or SISSRs analysis)
* '''Matrix''' – Path to positional weight matrix
+
 
* '''Minimal region length''' – Minimal length of sequence region
 
* '''Minimal region length''' – Minimal length of sequence region
* '''Output table''' – Table with charts will be created in this location
+
* '''Matrix''' – Path to positional weight matrix
 +
* '''Path to output folder''' – Output folder will be created under this location
  
 
[[Category:Analyses]]
 
[[Category:Analyses]]

Revision as of 16:17, 11 December 2014

Analysis title
Default-analysis-icon.png Common and IPS scores correlation
Provider
Institute of Systems Biology
Class
CommonAndIPSCorrelation
Plugin
biouml.plugins.bindingregions (Binding-regions related analyses)

Description

Correlation between common score and IPS-score for best IPS-sites in single Chip-Seq track

Parameters:

  • Sequences collection – Select a source of nucleotide 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
  • Input track – Select input ChIP-seq track (must be the result of MACS or SISSRs analysis)
  • Minimal region length – Minimal length of sequence region
  • Matrix – Path to positional weight matrix
  • Path to output folder – Output folder will be created under this location
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