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Hi there,
I would like to apply OFF-PEAK to some targeted EM-seq data (obtained using the Twist Methylome Panel). However, since the tool was designed specifically for exome sequencing data, all ta…
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Hello dear developers,
I am using PECAT to assemble a diploid genome (SMRT Cell, PacBio), however, the process is stuck at the assembly stage, the following error appears:
```
2024-07-31 11:0…
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### Name of the tool
`picard CollectWgsMetricsWithNonZeroCoverage`
### Tool homepage
https://github.com/broadinstitute/picard
### Tool description
Collect metrics about coverage and performance o…
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Hello,
I hope that you can help me with this :
Can I use nanocaller on my fastq.gz files generated using ONT minion technology ?
Can I use it to detect variants in fungus ?
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If I understood the documentation correctly, `--covcut` is only used to calculate the genome coverage at a given depth (10x by default), but it doesn't influence the abundance estimation, is that corr…
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Dear Tcell ExTRECT team,
I have some whole-genome sequencing (WGS) data sequenced at a decent coverage (50x). Can I apply this tool to WGS data and get the t cell infiltration fractions?
Thank…
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### Feature Request
This issue is a solicitation for feedback on an idea.
I've been working on the [RSV pipeline](https://github.com/CDPHE-bioinformatics/CDPHE-RSV) and reusing tasks from this r…
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Hello!
Im working with gc_extrap with data has been enriched for mitochondrial genome (MT) and Im unsure what is the best way to proceed, or if is even adequate to use preseq with enriched data. I ha…
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Hi,
I have PacBIO Hifi reads (~4kb) with very 200-300x coverage, as well as 30x PCR-free WGS data for around 30 normal human samples. I'm particularly interested in one region around 400kb long, th…
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Hi, I am trying to reanalyze the data, but I am confused about the data in tableS3. Thank you !
**Q1:** Why are the results in Table S1 and Table S3 so different? Did you do additional filtering for …