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Hi @zhxiaokang
It seems I am having a problem with the BAM step in my workflow.
I get the following output
`[Wed Jan 6 23:51:27 2021]
rule featureCount:
input: data/output/pva027/ge…
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Hi @dancooke ,
I am experiencing an issues where Octopus seems to miss variant calls in very-high depth regions (2000-5000x and higher).
The parameters typically used are:
```
caller=cance…
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Hi!
Thank you for developing this tool! I am very excited to include it in my analysis! However, I haven't been able to get it up and running. I have updated to the latest version, and I have all th…
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**Operating system**
CentOS
**Package name**
gcpp 2.0.0-v2.0.0
**Conda environment**
What is the result of `conda list`? (Try to paste that between [triple backticks](https://help.github.com/arti…
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Hi !
could you please recommend to me a software to remove PCR dupicate? And for all mapped reads and only uniquely mapped reads, which will be better to call peak?
Thank you very much!
yx-xu updated
4 years ago
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Hello,
From what I understand, the very first step of fgbio's consensus calling algorithms is adjustment of input base qualities. The wiki page https://github.com/fulcrumgenomics/fgbio/wiki/Calling…
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Hello,
I have single sperm data of cattle, and I ran CNVnator find the GC correction error. It was report total chromosome with strat and end as one large CNV. So does CNVnator provide a special c…
xyxss updated
4 years ago
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**Describe the bug**
I was trying to run zUMIs yesterday after generating a genome index for a scRNA-seq. Filtering stage was alright but after that I got the message:
`EXITING: fatal input ERROR: r…
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There is an assertion in SMTInterpol that does not appear when using the plain SMTLIB dump with the library.
## Possible steps to do:
- Minimize the example. Aim for a direct SMTLIB file, or provi…
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Hi,
We have been observing consistently low evidence (split_reads) for fusions detected in cell lines/solid tumor samples as compared to when I use FusionCatcher or Pizzly. Is this expected or is t…