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I'm currently working on setting up CloudNeo for use with rabix, and I wanted to let you know that the installation instructions need updating.
For the netMHC and netMHCpan installations, the soft…
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Hi Frank,
First of all congrats and thanks to share this great tool!
I've managed to run it on a small subset of our own patients. We usually test the immunogenicity of neoantigens as longer ep…
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Various LJI tools need their own alternative terms. I think the should each get a new column in the `iedb/iedb.tsv` table.
Details to be figured out. A good start would be:
1. a (hopefully short…
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when i test `mhctools --sequence SIINFEKL SIINFEKLQ --mhc-predictor netmhc --mhc-alleles A0201`,I got the error ---FileNotFoundError: [Errno 2] No such file or directory: 'netMHC'.
How to configu…
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Hi,
Thank you for developing the app, unfortunately during installation I am getting the following error message:
```
Uncompressing files at: net
Downloading file in: /wd/netMHC-4.0
.... This …
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Expected Behavior:
All PDBs in the template set has allele assigned, especially for anchor prediction using NetMHCIIpan
Current Behavior:
Some PDBs e.g. 6XP6, 7KEI still do not have allele assign…
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Transformation of prediction score to its rank based on empirically approximated scoring distribution using random peptides of natural proteins
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SNAF is amazing with its integration of a entire workflow of identification of neoantigen. However, I wonder if there is a way to create custom control dataset? It will be super helpful for researcher…
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Using `netmhccons` results in these errors, which come from `netmhc-3.4`:
```
Traceback (most recent call last):
File "/Users/julia/code/netmhc-bundle/netMHC-3.4/netMHC.py", line 535, in
…
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Error received:
```
Traceback (most recent call last):
File "/Users/Ryan/anaconda2/bin/topiary", line 64, in
main()
File "/Users/Ryan/anaconda2/bin/topiary", line 46, in main
epitopes = …