GitHub - mandricigor/imrep: ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.

4 Branches 6 Tags

Name	Name	Last commit message	Last commit date
Latest commit Serghei Mangul fix bug in extracting reads mapped to BCR and TCR loci from bam file. May 27, 2018 56b6470 · May 27, 2018 History 93 Commits
db	db	correct mouse genes	Mar 22, 2017
example	example	add headers to summary files	Feb 8, 2018
ext	ext	add ext directory with existing tools. Fo rnow we have samtoools ther…	May 23, 2017
.gitignore	.gitignore	added .gitignore	Mar 28, 2017
INSTALL	INSTALL	count number of reads extrcated from BCR and TCR loci	May 23, 2017
NOTES	NOTES	add notes about previous releases	May 23, 2017
README.md	README.md	Update README.md	Jul 19, 2017
_config.yml	_config.yml	Set theme jekyll-theme-minimal	May 26, 2017
argparse.bash	argparse.bash	add imrep4bam.sh which supports bams	May 23, 2017
cast.py	cast.py	finish with the format. Now it is comma delimited. and V,D,J genes ar…	Feb 7, 2018
clonality.py	clonality.py	add headers to summary files	Feb 8, 2018
compare.repertoires.py	compare.repertoires.py	add script to calculate all pairwise coparisoipn of the immun erepeto…	Dec 30, 2017
figure_imrep.png	figure_imrep.png	prepare for release v0.7	Jul 19, 2017
imrep.huge.sh	imrep.huge.sh	adding script for handling huge input files	Aug 10, 2017
imrep.py	imrep.py	fix bug in extracting reads mapped to BCR and TCR loci from bam file.	May 27, 2018
info.py	info.py	updating release info	Jun 22, 2017
install.sh	install.sh	add user option for pip instalation of pysam	Jul 19, 2017
run.compare.repertoires.py	run.compare.repertoires.py	add script to calculate all pairwise coparisoipn of the immun erepeto…	Dec 30, 2017
search.py	search.py	First commit	Oct 31, 2016
suffix_tree-2.1.tar.gz	suffix_tree-2.1.tar.gz	add instalation script	Mar 26, 2017
utils.py	utils.py	finish with the format. Now it is comma delimited. and V,D,J genes ar…	Feb 7, 2018

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ImReP is a method for rapid and accurate profiling of the adaptive immune repertoires from regular RNA-Seq data

See the main webpage https://github.com/mandricigor/imrep/wiki

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