PWMTools

PWMEval - Evaluation of Binding Models based on ChIP-seq data

ChIP-seq Data Sets
Select available Data Sets
         Genome:   
         Data Type :   
         Series :   
         Sample :   

Upload custom Data
     
      from a FILE (gzip or zip formats are also accepted):
     
      or from a URL:
     
      Score Field :
      Experiment :
      Feature  :     
 Genomes

Additional Input Data Options
 Repeat Masker      
Weight Matrix
PWMs from Library     
        Motif Library:  
        Motif :  
Custom Weight Matrix
Matrix Format
                     

Paste Matrix
                     
                     

Or Upload (text File containing the matrix)
                      from a FILE :
                     
                      or from a URL:
                     

Options for Binding Prediction Method
  ChIP-seq peak ranking (peaks used for predictions)
        From :     To :
  Sequence Length (bp) (for ChIP-seq data sets)
  Downstream Shift of Negative Set (bp)
  Reverse peak ranking
         (By default, top-ranked peaks are used for prediction)
  Odds-ratio mode (bg composition-based normalization)
        Uniform bg   Seq Library bg   Sequence-based bg
  Best match scoring (compute single best match score)

     

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Last update February 2017