Join GitHub today
GitHub is home to over 40 million developers working together to host and review code, manage projects, and build software together.Sign up
BMix is a novel probabilistic method based on a constrained three-component mixture, which identifies high confidence T-to-C substitutions in PAR-CLIP data, and, based on these, reports putative RNA-protein cross-link sites.
Fetching latest commit…
Cannot retrieve the latest commit at this time.
|Type||Name||Latest commit message||Commit time|
|Failed to load latest commit information.|
BMix is a toolbox for analysing PAR-CLIP data and detecting T-to-C substitutions induced following RNA-protein cross-linking. Candidate binding sites are reported starting from the identified T-to-C substitutions. The toolbox is presented in the manuscript: Monica Golumbeanu, Pejman Mohammadi and Niko Beerenwinkel.(2015) BMix: Probabilistic modeling of occurring substitutions in PAR-CLIP data Contact: email@example.com firstname.lastname@example.org email@example.com The present repository is organized as follows: 1. File README.txt - the present file 2. File documentation.pdf - contains instructions of use of the toolbox 3. Folder source/ - contains the source code of all the scripts of the toolbox 4. Folder test/ - contains example data ready to use with BMix, as well as the expected outcome Dependencies: - Matlab (at least R2013) or R (at least 3.1.2 and installed package nloptr) - samtools (http://www.htslib.org/) - awk (http://www.gnu.org/software/gawk/manual/gawk.html) - bedtools (http://bedtools.readthedocs.org/en/latest/)