TO BE UPDATED

01/07/2018 The JASPAR UCSC tracks module now uses PWMScan, instead of MEME and the Perl TFBS package, for speeding-up genome-wide TFBS predictions.

The repository is organized as follows:

• The files folder contains the output from make_files.py: i.e. the JASPAR profiles from the different CORE collections
• The scripts functions.py, jaspar_search.py and make_files.py

The original scripts used for the publication of JASPAR 2018 have been placed in the version-1.0 folder.

The scripts for creating the JASPAR UCSC tracks require the following dependencies:

• PWMScan
• Python 2.7 with the Biopython, NumPy and tqdm libraries
• UCSC binaries for standalone command-line use

Pre-calculated genome-wide TFBS predictions for human and various model organisms are available through http://jaspar.genereg.net/genome-tracks/#ucsc_tracks and http://expdata.cmmt.ubc.ca/JASPAR/downloads/UCSC_tracks/2018/.

TO BE UPDATED