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One thing that the C++ definitely needs is a option to specify the location of the germline sequences, which is in Duncan's modified version of ighutil as a `--vdj-dir` flag.
@psathyrella, mind if w…
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Hi,
I am currently running the HLA typing software portion of the MHC-PRG package. I set up the commands as described in the github descriptions however when I ran the program, I received this error:…
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**[Original report](https://bitbucket.org/kleinstein/changeo/issues/68) by Jason Vander Heiden (Bitbucket: [javh](https://bitbucket.org/javh), GitHub: [javh](https://github.com/javh)).**
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Hello,
I think there might be pup error in these message, but how could I fix it?
$ mixcr importFromIMGT
Starting importFromIMGT.sh script
By using this script you agree to the terms of use of IMGT w…
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OSX 10.10.5 and OSX 10.11.3 give the same error ...
sh ./importFromIMGT.sh
By using this script you agree to the terms of use of IMGT website. (see http://www.imgt.org/ for details).
-n Press ENTER t…
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First of all thank you very much for this extremely useful tool.
We get an error after the Running IgBLAST part. Independent whether I try the test_data (mouse) or our own data (human):
## Running I…
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I am trying to run `mixcr align --library local -s musmusculus ...` after I have imported from IMGT. I get following error message now:
```
Exception in thread "main" java.util.zip.ZipException: inva…
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**[Original report](https://bitbucket.org/kleinstein/changeo/issues/60) by Jason Vander Heiden (Bitbucket: [javh](https://bitbucket.org/javh), GitHub: [javh](https://github.com/javh)).**
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hello,
I used MiXCR for Illumina PE data from human TCR. I have two questions about the result.
1. The two analysis results were not consistent with same command lines. I followed the tutorial from ur…
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Hello,
I was trying out your TRaCer algorithm (great work by the way). I noticed when setting the organism to human in the configuration file, that the program was still attaching the mouse TCR a…