Difference between revisions of "ROC-curves in overlapped ChIP-Seq peaks (analysis)"

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(Automatic synchronization with BioUML)
(Automatic synchronization with BioUML)
 
Line 19: Line 19:
 
* '''Species''' – Select a taxonomical species
 
* '''Species''' – Select a taxonomical species
 
* '''TF class''' – TF class in Wingender classification (like <nowiki>'</nowiki>2.1.1.1.4<nowiki>'</nowiki>)
 
* '''TF class''' – TF class in Wingender classification (like <nowiki>'</nowiki>2.1.1.1.4<nowiki>'</nowiki>)
* '''Matrix''' – Path to positional weight matrix
+
* '''Matrix''' – Path to frequency matrix
 
* '''Minimal region length''' – Minimal length of sequence region
 
* '''Minimal region length''' – Minimal length of sequence region
 
* '''Is around summit''' – Is around summit
 
* '''Is around summit''' – Is around summit

Latest revision as of 19:00, 13 February 2017

Analysis title
Default-analysis-icon.png ROC-curves in overlapped ChIP-Seq peaks
Provider
Institute of Systems Biology
Class
ROCcurvesInOverlappedChipSeqPeaks
Plugin
biouml.plugins.bindingregions (Binding-regions related analyses)

[edit] Description

Create ROC-curves in overlapped ChIP-Seq peaks (when there are several peaks sets for given Tf-class)

[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
  • TF class – TF class in Wingender classification (like '2.1.1.1.4')
  • Matrix – Path to frequency matrix
  • Minimal region length – Minimal length of sequence region
  • Is around summit – Is around summit
  • Types of site models – Select site models for comparative analysis
  • Path to output folder – Output folder will be created under this location when it doesn't exist
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