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From @tavinathanson:
> I'm fairly unclear right now about how best, when using cohorts, to use epidisco results; for example using epidisco neoepitopes rather than https://github.com/hammerlab/cohort…
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Hi,
I am attempting to use antigen garnish to predict neoantigens from fusion proteins predicted by arriba/starfusion/fusioncatcher.
I took the predicted peptides from those programs (quite long, mi…
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Taking (now closed) PR #116 & turning it into a feature request for discussion.
## Goal
Rather than printing `missense_snv_col` in plots, print `Missense SNV Count / MB` or `Missense SNV Count`, depe…
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Let's make sure this wasn't a one-off error. CC @gongyixiao @kpjonsson
If never seen again, we can ignore .
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Hi, thanks for constructing such a wonderful software!
I am running espresso to identify novel splicing transcripts.
My script is as follows:
echo "Starting espresso"
module load Anaconda3/5.0.1…
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Hi,
Aplogies if I am sking something pointless I am fairly inexperienced in coding.
I got this error: no such file or directory "assets"
![image](https://github.com/frankligy/SNAF/assets/694271…
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e.g. B2M, TAP, &c.
Identifying loss in MHC might require running a custom program which first does genotyping of the germline MHC and then calls somatic variants against those specific alleles.
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Thank you very much for your excellent work.
I encountered some errors while running my own data following the [tutorial.](https://snaf.readthedocs.io/en/latest/tutorial.html) Here is the error log:…
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Many papers on mass-spectrometry based proteomics have shown the use of deep learning for intensity prediction, combining scores across search algorithms, retention time, collision corss section predi…
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can you give some advice, thanks a lot