Non-merged ChIP-Seq tracks summary (analysis)

Analysis title

Non-merged ChIP-Seq tracks summary

Provider

Institute of Systems Biology

Class

NonmergedChIPSeqSummary

Plugin

biouml.plugins.bindingregions (Binding-regions related analyses)

Description

Summary of non-merged ChIP-Seq tracks (creation of tables: 'summaryOfTracks', 'summaryOfCellLines', 'summaryOfTfClasses', 'countsOfTfClassesInCellLines')

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)
• TF names table – TF names table (TF class as a row name and TF title in 'tfName' column)
• Path to output folder – Output folder will be created under this location