IGoR
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qmarcou
IGoR is a C++ software designed to infer V(D)J recombination related processes from sequencing data. Find full documentation at:
Hi,when I used the align command as follows(using the demo data murugan_naive1_noncoding_demo_seqs.txt): igor -set_wd $WDPATH -batch foo -species human -chain beta -align --all Then I got the result foo_indexed_CDR3s.csv,However the...
The [default TCR beta `model_parms.txt`](https://github.com/qmarcou/IGoR/blob/master/models/human/tcr_beta/models/model_parms.txt) contains extraneous information from the IMGT where, ideally, only the name of the allele should be. Compare this to the `model_parms.txt` files for [IGL](https://github.com/qmarcou/IGoR/blob/master/models/human/IGL/models/model_parms.txt), [IGK](https://github.com/qmarcou/IGoR/blob/master/models/human/IGK/models/model_parms.txt),...
**Describe the bug** The program is segfaulting with more recent compilers, in particular with `gcc` `11.x.y` **Additional context** `igor -run_demo` results in a segfault **Steps to reproduce the bug** As...
Hi, I noticed that when I am running -infer I always get all zero parameters in the _final_marginals.txt_. This leads to no difference in the generated sequence for all my...
Hi, I'm having a problem installing the software on a MacBook Pro 17" (late 2011, OS X version 10.10.5). I have GCC 8.1 installed via Homebrew. To begin I run...
**Describe the bug** I performed the following operations on my machine to install IGoR from source ``` git clone [email protected]:qmarcou/IGoR.git cd IGoR ./autogen.sh ./configure make ``` which fails with the...
**The issue** IGoR seems to be routinely over-estimating the number of TRAV/TRBV gene deletions (and therefore presumably is correspondingly doing less well in other parameters too). **Additional context** When running...
Hello, I believe I have installed IGoR successfully with ```./config --prefix=$(pwd) && make && make install```. When running the demo, I run into a segmentation fault after alignment during construction...
Fixed segmentation fault error (see issue #62) by adding "return" to matrix assignment operator
Hi, I start to learn IGoR software.I use the command as follows: (1).igor -set_wd $WDPATH -batch foo -read_seqs ./demo/demo.fasta (2).igor -set_wd $WDPATH -batch foo -species human -chain IGL -align --all...