imrep

imrep copied to clipboard

I am unable to install the program due to dependencies of some python packages. In the docs, it is stated that the program is made for python2, but the installation...

justalilibit

Dear Igor Mandric and Serghei Mangul, Thanks for your ImReP. I have a install issue, which is python: can't open file 'setup.py': [Errno 2] No such file or directory. And...

JianGuoZhou3

Missing license

1

Please add license file to the project.

DzmitryGB

ImRep complaining about index file being older than the BAM file

2

When running ImRep with a BAM, I get the error saying that BAM file and index file are out of sync, even though the index file that is used is...

vihaj

I have bam files from the Hisat2 aligner which only included the mapped reads. I extracted the unmapped reads from the original fastq based on the bam files and used...

dingxm

Hello! I think I may have found a potential bug in imrep.py while running it using the --digGold -a options: File "/users/tools/imrep/imrep.py", line 1022, in extract_mapped(i,file,k) TypeError: extract_mapped() takes exactly...

alexpan82

add next(reader) to skip the headline and remove sample_1 or sample_2 from file names to locate the outputs of clonality.py

dormeight

bugs of compare.repertories.py

1

hello, I just ran some RNASeq data with ImRep. Compared with TRUST and mixcr. Thanks to your wonderful work, this program runs really fast! But when I tried to the...

dormeight

check if the extension is bam if bam was selected right now if i run ~/anaconda2/bin/python imrep.py --noCast example/toyExample.fastq test this error Traceback (most recent call last): File "imrep.py", line...

smangul1

Hi. I perform analysis of big set of RNA-seq data from cancers, and wanted to check out this IG repertoar direction as well. I usually run all analysis in snakemake...

sergiigladchuk