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Hi,
The readme mentions that t1k post analysis steps can do copynumber and novel SNP detection. Is there any detail regarding how to do the tasks? There is a t1k-copynumber.py, but I am not sure if…
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Hello! I am interested in calculating aFC for genes with multiple causal variants and was pointed to this tool by Stephane Castel.
This seems like a really great extension of the aFC tool! I was cu…
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Dear developer！
I used 1085 resequenced individuals to extract non-reference sequences through Popins2 assemble, but when I use Popins2 merge, it shows "Segmentation fault (core dumped) popins2 mer…
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It's important to try and clear up some of the confusion. Here's one:
https://doi.org/10.1016/j.tig.2019.12.008
> Notably, tsinfer does not explicitly infer an ARG but rather a sequence of loca…
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Hi,
Thanks for your work on this program. The method seems really elegant and we've had some really exciting results from it so far.
Here is a brief outline of our preliminary analysis:
- We…
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### Description of the bug
Hi. I hope to get some help or suggestions. Have no experience and only installed Ubuntu for trying to run and use pgsc_calc for personal use on Ubuntu 22.04.2 that I insta…
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### What happened?
Thank you for updating the workflow. I am running the workflow epi2me-labs/wf-human-variation 1.4.0 on EPI2ME Labs. I have tried to use the UCSC human reference downloaded from:
…
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We have a new software developer for the PennCHOP Microbiome Program, Charlie Bushman (@Ulthran), which presents a new opportunity for us to devote some serious attention to Sunbeam. I'd like to renew…
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Hello,
I'm part of a project called the Common Fund Data Ecosystem (CFDE) (https://commonfund.nih.gov/dataecosystem). Our group, under PI Owen White, are the CFDE Coordinating Center. Among other…
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Hi Teng,
Thanks for developing this tool! Our group are currently run numbat on our full-length scRNA-seq data. We noticed that the setting of "--minMAF" and "--minCOUNT" are set to 0 and 2, respec…