Comments (1)
Hi,
Thanks for the interest in our work and the feedback. I developed sigLASSO really as a new statistical learning algorithm to better assign mutational signatures. The algorithm inputs are the "mutational context" and "signatures".
To help users to use the tool, we supplied a simple basic bash script (get_context.sh) to preprocess the vcf/fasta and did an R wrapper on top of it. We encourage users to use this script as a prototype and modify it as needed.
I apologize that you found it hard to use. I have added a quick patch for this.
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Related Issues (9)
- Fail due to glmnet error HOT 1
- Mutational signatures v3 upgrade HOT 1
- Error in context2spec(context_file) : Unexpected mutation context! HOT 2
- `siglasso` function takes too long running time HOT 6
- non-human genome
- Extremely slow with many samples HOT 1
- Error: all penalty factors are <= 0
- error in cv.glmnet()
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