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### Is there an existing module for this?
- [X] I have searched for the existing module
### Is there an open PR for this?
- [X] I have searched for existing PRs
### Is there an open issue for this…
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Placeholder ticket with some notes:
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Seqr-Sample-QC
Sequencing metrics
if it's exome and external
Platform Level Computation
For exome samples
coverage stats, figure out which pl…
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Hello,
can vdjer work on whole-exome sequencing data? or how to adjust the parameters to make it work for whole-exome sequencing data?
Thanks much!
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Dear Developer,
I am wondering if there is anyway to use msisensor2 to detect MSI in the whole-exome sequencing data with mouse tumor samples? Do you know if there is any other program that can do …
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I would like to run QDNAseq on whole exome sequencing data (captured using SureSelect Human All Exon platform which covers about 50MB of the human exonic regions). Knowing this, how can I modify the Q…
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Hello,
I would like to ask what would be the recommended cval number for WES data with 40x coverage when using facets-suite? I come across this post (https://github.com/taylor-lab/facets-suite/wiki…
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Hi,
I have successfully used DISCOVER with data from whole-exome sequencing. I am wondering whether I can use it with data from targeted sequencing data generated by MSK IMPACT or DFCI OncoPanel. A…
jud-b updated
6 months ago
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### Description of the bug
Hi Developers,
I'm trying to run the Sarek implemented ASCAT for CNV analysis on WES data. On the nfcore Sarek website, it's suggested to follow 5 steps, as specified in…
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@mandichen
Hi,mandichen
Good job and I am very interested in your research, but I have some questions.I used the sample data BM2_v0s0_n_200.h5ad and Macosko_cell_cycle_genes.txt to get the follow…
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“SV calls can be inferred from discordantly aligned reads from whole genome sequencing (WGS) using different algorithms” in the introduction section, I am confused that whether CNV &SV calls from whol…