-
- oncology is a broad therapeutic area - need to focus on sub-areas of oncology
- solid tumor - how quickly and how significantly you can shrink the tumor
- hematological - decrease/increase of para…
-
As an example, (I hope that this Scout-link will persist): https://scout-stage.scilifelab.se/cust087/F0049453/sv/variants/8e2113f40646b16473f9a12af4e57e0b
This is one of the variants that we're loo…
-
### Description of the bug
`ASSESS_SIGNIFICANCE` step keeps failing at Rscript with the below error:
```
ERROR ~ Error executing process > 'NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:BAM_…
-
Hi All,
Maybe I missed something but are there a command in snakemake file to specify a sample-paired normal control in the snakemake file? I successfully run once in tumor only mode.
Thanks.
-
thanks a lot
-
## Bug Report
### Affected tool(s) or class(es)
Mutect2
### Affected version(s)
Tested in 4.1.2 up to and including 4.1.5
### Description
Here's an IGV screenshot of a variant I found. On…
-
Hi,
We have been running multiple SV callers on high coverage data (275x tumor / 156x normal). We have observed that SvABA seems to be making quite a few SV calls that are about 500bp in size and o…
mej54 updated
5 years ago
-
Hi @litaifang,
Thanks for your great tool which helps me a lot.
I wonder if there is an option/parameter to output the vcf file which contains not only the allele of tumor sample but also the norm…
-
I am running HATCHet v1.1 (recently upgraded from v1.0) in bioconda. I am having trouble with `count-alleles` generating incomplete output files. I am working within the `hatchet run` pipeline, but ha…
-
Hello Sir,
I want that the process of training only uses GPU memory as needed, or only grow with GPU memory. And for it, I changed the code in trainSession.py and testSession.py like this:
```
…