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Dear epiAneufinder team,
Thank you for such a useful tool for the community. I am currently working with a 10x multiome sample that has a median 3500 high-quality ATAC fragments per cell (re…
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Dear Mr. AntonioDeFalco,
Last day, I just re-running one sample data, then I found it seems like the results have some different. The tsne_scRNA.png, subclone numbers and tumor-No tumor identify was …
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@anhtuduong
Below are the discussion between me and Jacopo recently, keep updated !
**Thu:**
`Hi ! This is the fold 0 training of dataset_2 (with histology), but the dice score is very low ~0.35…
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Hi, I am trying to run cgpwgs within docker on my own data. Here is my code:
```
export CGPWGS_VERSION=2.1.1
docker run --rm \
-w myworkpath/Project \
-v myworkpath/:myworkpath/ \
-v myw…
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Currently only tumor-normal VCFs are supported.
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Can I used for tumor-only bulk mRNA-seq?
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For `/data/CCBR` as of July 2024, `df` reports a disk usage of 197.2 TiB, while spacesavers2 reports a disk usage of 161 TiB.
I checked 3 project directories with spacesavers2 and compared the resu…
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### Description of feature
I noticed a couple of things when testing with tumor-only samples:
1) The used `--vcf-tumor-id` is not correctly resolved:
Sample sheet has: `QFEND268A3,QFEND268A3,…
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Test LangChain ability to use cBioPortal API
* https://python.langchain.com/docs/integrations/toolkits/openapi/
* https://docs.cbioportal.org/web-api-and-clients/
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I have some samples -only tumour, no any normal samples as control, and here is my code for these pipeline, it's OK?
python3 /share/home/luoylLab/zengyuchen/biosoft/AmpliconSuite-pipeline/PrepareAA…