nimeventer
mosdepth
| nimeventer | mosdepth | |
|---|---|---|
| 1 | 3 | |
| 10 | 656 | |
| - | - | |
| 0.0 | 6.3 | |
| about 1 year ago | 16 days ago | |
| Nim | Nim | |
| MIT License | MIT License |
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nimeventer
mosdepth
- Calculating Average Coverage or Read Depth for a Sequence (WES)
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Why is bedtools genomecov giving me a blank output file?
I'm not sure why that happens, but an alternative to bedtools genomecov is mosdepth. Maybe you can try that tool instead as it's very reliable.
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Is there a tool that quantifies “spatial coverage”, that is what percentage of a reference assembly has a read mapped to it?
I would give mosdepth a look. It can provide depth across a chromosome/contig at each base, or a mean depth for a given window size (eg 1kb), or regions provided within a bed file, or a simple summary of the mean depth across each chromosome/contig.
What are some alternatives?
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