This program (named motifpredictor) is used to identify motifs (miRNA-TF-gene loops) from networks
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INSTALLATION & USAGE
Pre-requisite:
1. Linux/Mac
2. C/C++ compiler (i.e. gcc, g++, dev c++)
Steps:
1. Download codes and data files from https://sourceforge.net/projects/motifpredictor/files/
2. Compile motifpredictor
For Linux/Mac
LANG=C gcc -Wall get_model_composite_FFL.c -o get_model_composite_FFL
LANG=C gcc -Wall get_model_miRNA_FFL.c -o get_model_miRNA_FFL
LANG=C gcc -Wall get_model_TF_FFL.c -o get_model_TF_FFL
3. Run samples
For Linux/Mac
./get_model_TF_FFL \
-input_TF2miRNA humanCP.TF2miRNA.txt \
-input_TF2gene humanCP.TF2gene.txt \
-input_miRNA2TF humanCP.miRNA2TF.txt \
-input_miRNA2gene humanCP.miRNA2gene.txt \
-output_file humanCP.TF_motif.txt
./get_model_miRNA_FFL \
-input_TF2miRNA humanCP.TF2miRNA.txt \
-input_TF2gene humanCP.TF2gene.txt \
-input_miRNA2TF humanCP.miRNA2TF.txt \
-input_miRNA2gene humanCP.miRNA2gene.txt \
-output_file humanCP.miRNA_motif.txt
./get_model_composite_FFL \
-input_TF2miRNA humanCP.TF2miRNA.txt \
-input_TF2gene humanCP.TF2gene.txt \
-input_miRNA2TF humanCP.miRNA2TF.txt \
-input_miRNA2gene humanCP.miRNA2gene.txt \
-output_file humanCP.composite_motif.txt
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Contact Us
Dr Zhongming Zhao,
Center for Precision Health,
School of Biomedical Informatics,
The University of Texas Health Science Center at Houston,
7000 Fannin Street, Houston, TX 77030, USA
E-mail: zhongming.zhao@uth.tmc.edu
Mr. Aimin Li, PhD
School of Computer Science and Engineering,
Xi'an University of Technology,
5 South Jinhua Road,
Xi'an, Shaanxi 710048, P.R China
E-mail: liaiminmail@gmail.com
Mr. Aimin Li, PhD
Center for Precision Health,
School of Biomedical Informatics,
The University of Texas Health Science Center at Houston,
Houston, TX 77030, USA
E-mail: liaiminmail@gmail.com
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