EasyTargetScan_0.1.py is a simple script that allows to use fasta files directly in with TargetScan to predict miRNA binding sites on a given sequence.
it requires Pearl and TargetScan http://www.targetscan.org/cgi-bin/targetscan/data_download.vert72.cgi
usage: EasyTargetScan_0.1.py [-h] -utr UTR -mir MIR [-output OUTPUT]
[-Taxon TAXON]
Allows to use TargetScan from FASTA files
optional arguments:
-h, --help show this help message and exit
-utr UTR a FASTA file conataining sequences to scan
-mir MIR a FASTA file conataining mature miRNA sequences
-output OUTPUT prefix of the output file
-Taxon TAXON mouse by default:10090
A simple scan using seed sequences can be done with the second python script scan_seq_with_seeds.py (without Pearl and TargetScan)