Merge binding regions for cell-lines (analysis)

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Revision as of 18:07, 14 June 2013 by BioUML wiki Bot (Talk | contribs)

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Analysis title
Default-analysis-icon.png Merge binding regions for cell-lines
Provider
Institute of Systems Biology
Class
MergeCellLineBindingRegions
Plugin
ru.biosoft.bsa (Bio-sequences analyses plugin)

Description

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

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
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