Identical best site ROC-curves (analysis)

Analysis title

Identical best site ROC-curves

Provider

Institute of Systems Biology

Class

IdenticalBestSiteROCCurves

Plugin

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

Description

Best sites: ROC-curves; union of best sites in single chip-seq track; massive applications to different tracks; summit(yes/no); filtration (yes/no); matrix derivation

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 track (it can be ChIP-seq track from GTRD; thus, it can be the result of MACS or SISSRs peak-finder)
• Is around summit – Is around summit
• Minimal region length – Minimal length of sequence region
• Matrix – Path to frequency matrix
• 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