Difference between revisions of "Merge binding regions for cell-lines (analysis)"

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m (Protected "Merge binding regions for cell-lines (analysis)": Autogenerated page (‎[edit=sysop] (indefinite)))
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;Analysis title
 
;Analysis title
:[[File:Binding-regions-Merge-binding-regions-for-cell-lines-icon.png]] Merge binding regions for cell-lines
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:[[File:Default-analysis-icon.png]] Merge binding regions for cell-lines
 
;Provider
 
;Provider
 
:[[Institute of Systems Biology]]
 
:[[Institute of Systems Biology]]
 
;Class
 
;Class
:{{Class|ru.biosoft.bsa.analysis.bindingRegions.MergeCellLineBindingRegions}}
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:{{Class|biouml.plugins.bindingregions.analysis.MergeCellLineBindingRegions}}
 
;Plugin
 
;Plugin
:[[Ru.biosoft.bsa (plugin)|ru.biosoft.bsa (Bio-sequences analyses plugin)]]
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:[[Biouml.plugins.bindingregions (plugin)|biouml.plugins.bindingregions (Binding-regions related analyses)]]
  
 
==== Description ====
 
==== Description ====
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* '''Cell line synonyms table''' – Cell line synonyms table (must contain the <nowiki>'</nowiki>newNameOfCellLine<nowiki>'</nowiki> column)
 
* '''Cell line synonyms table''' – Cell line synonyms table (must contain the <nowiki>'</nowiki>newNameOfCellLine<nowiki>'</nowiki> column)
 
* '''Chromosome gaps table''' – Table containing chromosome gaps information (output of "Gathering genome statistics" analysis)
 
* '''Chromosome gaps table''' – Table containing chromosome gaps information (output of "Gathering genome statistics" analysis)
* '''Path to output folder''' – Output folder will be created under this location
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* '''Path to output folder''' – Output folder will be created under this location when it doesn<nowiki>'</nowiki>t exist
  
 
[[Category:Analyses]]
 
[[Category:Analyses]]

Latest revision as of 12:20, 25 August 2015

Analysis title
Default-analysis-icon.png Merge binding regions for cell-lines
Provider
Institute of Systems Biology
Class
MergeCellLineBindingRegions
Plugin
biouml.plugins.bindingregions (Binding-regions related analyses)

[edit] Description

Create cell-specific tracks with merged binding regions (creation of tables: 'bindingRegions_in_[CellLine*]')

[edit] 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
  • Folder containing ChIP-seq tracks – Folder containing ChIP-seq tracks
  • Species – Select a taxonomical species
  • Cell line synonyms table – Cell line synonyms table (must contain the 'newNameOfCellLine' column)
  • Chromosome gaps table – Table containing chromosome gaps information (output of "Gathering genome statistics" analysis)
  • Path to output folder – Output folder will be created under this location when it doesn't exist
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