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Dear developer team,
Thank you very much for this great software. When I test it，this message appears:
Traceback (most recent call last):
File "D:\Software\MhcVizpipe-Pack\MhcVizPipe\python\lib…
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When launching the AAMS run:
`python aams_pipeline.py -M ../output/runs/test_run/run_tables/test_pair_test_run_mismatches_20_400_5_gq_20_0.8_bl_3.tsv -T ../output/runs/test_run/run_tables/test_pair_t…
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For example:
>>> batch1 = gtex_ctrl_db[:,gtex_ctrl_db.var["tissue"] == "Pituitary"]
>>> batch1
View of AnnData object with n_obs × n_vars = 2476734 × 24
obs: 'mean', 'std'
var: 'tissue', …
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I removed the part of the code in test-check_netMHCpan_bin_url and the check_netMHCpan_bin_url where it referenced a YouTube video as it concerned the other project. If we make a new one (do we need t…
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### Description of the bug
The epaa.py script expects a `--reference_proteome` as argument, however via the nextflow script only `--proteome` is parsed:
https://github.com/nf-core/epitopepredictio…
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Hi,
I would like to use epitopepredict for my predictions. Tepitope and mhcflurry work, but netMHCpan does not. I use the same test.config file for all of the mentioned predictors. However, netMHCp…
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when request data from NetMHC,NetMHCIIpan,NetMHCcons,NetMHCpan, the program may stop of request error, but can recue when rerun, so is it convenient for you to add retry functions like https://github.…
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In the case below, the given MHC sequence is not available in NetMHCpan-4.1. Therefor, using netMHCpan = True will not provide predicted anchors. After an error message is given the code keeps running…
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I understand that MuPeXI only works with NetMHCpan 4.0. Will it be upgraded in the future, or left as it is?
Thanks!
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Would it be possible to add NetH2pan as a supported epitope prediction algorithm? NetH2pan is a standard benchmark/tool for MHC class I binding affinity predictions in mice.