-
Dear colleagues, dear STAT545/547 team,
I tried something new, and it didn't go down exactly as planned, but I still hope you will enjoy reading my homework :)
Homework 7 repository [HERE](https…
-
I think it's likely that there is a general expression pattern for how mutated a tumor is. For example, super mutated tumors may have wacky gene expression, solely because they're super mutated and no…
-
Hi,
First of all, thank you for this wonderful tool.
I used CTAT_Mutations v3.2.0 in Conda environment and I am wondering why 'subprocess.CalledProcessError' is happening.
the command line is:
…
-
Step to reproduce:
1. Go to SCXA home page and click on `CFTR` link from the list of examples
**Expected result:**
In the resulting table the `Number of assays` should be populated of the number of…
-
Does SigProfilerAssignment work for targeted panels such as TSO500 and FMI CDx? I guess not?
If it works, is there anything special to keep in mind when applying SigProfilerAssignment to targeted P…
-
Hi, Shixiang
Thanks for developing this great tool! I have 2 questions.
1)
I used maftools to merge a couple of maf files and loaded it to sigminer, and followed by the workflow as below:
#----…
-
Hi, I hope I'm not missing anything, but in the paper that came out earlier this year, it was mentioned that there were two steps to extracting the COSMIC signatures- SigProfilerExtractor and SigProfi…
-
Hello,
I try to use SigProfilerAssignment on ~70 samples but I am stuck with an error.
I call the function Analyze.cosmic_fit this way:
```
Analyze.cosmic_fit(samples="../outputs/mutational_sign…
-
Keeping track of timings for the sessions on the workshop that ran 11th Dec 2023. To help with timetable in the future.
**day 1**
- 09:40 - 09:50 Welcome (hugo)
- 09:50 - 10:15 Know your bug (A…
-
hi processor @mdbarnesUCSD
I change my code and use the given parameters
The cpu usage is still very low.
When it gets the "making matries for INDELs", the cpu usage is too slow.
It costs too mu…