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Hi, I am trying to use octopus for liquid biopsy samples. In this context I have deep (10,000x) targeted (~1.3Mb Panel) sequencing data which are preprocessed by deduplication and bqsr (gatk). So cove…
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- [ ] https://github.com/rollkit/rollkit/issues/829
- [x] #1724
- [x] Refactor sequencer like an endpoint so that it can:
- Accept a Tx
- create a batch post to DA
- pull/subscribe fo…
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http://www.cell.com/cell-systems/abstract/S2405-4712(15)00113-1
@arahuja looked into this a few months and said it still wasn't in dbGAP
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Hi, Thank you for providing this great tool! I am interested in calculating CpG entropy, and I am wondering how sequencing depth (such as comparing data with 10X coverage vs. 30X coverage) and CG cont…
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The kma seems to be ran with default parameters which means that the identity cut off is about 20% for sequence identity. Why is there custom no cut off for KMA?
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Dear@Kinggerm
Thank you for your constant updates to the software. I'd like to ask for advice if it's convenient for you. That how to use GetOrganelle to capture organelle genome data from the th…
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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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Hi.
I'm wondering if this algorithm can be employed to targeted sequencing panel other than MSK-IMPACT?
Thanks.
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Hello! I encountered the following error. I tried to check the source code but I can't locate where the function is because there is no file called 'oligo_filter.py'. What's the possible cause of this…
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Belinda found this dataset: https://febs.onlinelibrary.wiley.com/doi/full/10.1002/1878-0261.12086
Drug screen of ~6 MPNST cell lines - pull drug response data from supp table 5: https://febs.onlineli…