Score calculation

This tool calculates the scores of TFBS present in a list of DNA sequences :

  • Option “All” determines the score of all sites in each DNA sequence and generate quantitative profiles. In this case, you can work with a maximum of 100 DNA sequences and a maximum of 1 000 000 nucleotides.
  • Option “Limit” gives similar results than “All” but only site with a score higher than a given limit will be shown. In this case, you can work with a maximum of 100 DNA sequences and a maximum of 1 000 000 nucleotides.
  • Option “Best” gives the site with the best score in each DNA sequence. Result of this option can be used as input for the ROC-AUC tool. In this case, you can work with a maximum of 5000 DNA sequences and a maximum of  10 000 000 nucleotides.

This tool also gives a graphic output showing the position of the better sites in each sequence (options “All” and “Limit”) and a histogram of showing the scores distribution.

    

1. Input your data
Upload the matrix file :
(you can download an example here)
Upload a sequence file in fasta format :
(you can download an example here)
Option :
If you choose limit, indicate its value :
2. Getting results
Enter a valid e-mail address where we can send a link to the results when the run is completed.
E-mail :  

 

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