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I'm not sure what I'm doing wrong here - I've found a variant but my output isn't providing me with a frequency of the variant. Here's the command I ran:
bcftools mpileup -d 1000 -f reference.fa m…
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Hi all,
I ran into an issue with `vcffilter` giving a segmentation fault.
```
$> vcffilter -f 'DP > 10 & MQ > 30' Sample_s1752869.bam_sorted_mapped.vcf.gz
Segmentation fault
```
When I che…
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I am using bcftools call (-c or -m) to call variants after calling bcftools mpileup. There are close by variants (looking at just the mpileup output) that have identical ref/alt ratios but one (2164…
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I'm trying to generate a consensus sequence that only shows alternate alleles if they show up at greater than 1% - essentially we're trying to compensate for a slightly higher error rate in PacBio seq…
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Hi! I am the author of a third party binary addon for Kodi that works fine with OSMC, but is unable to auto-update due to the repository being stored on a site (GitHub) that does not support the "?sha…
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Hi all!
I get an internal error when i start test via Pycharm 2018.2 and pytest-3.10.0
The first test is success but the second one causes the error.
When i do the same via command line - no error…
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**URL**: https://mail.google.com/mail/u/0/#settings/offline
**Browser / Version**: Firefox Nightly 69.0a1 (2019-06-05)
**Operating System**: Windows 10 Pro
**Tested Another Browser**: Yes…
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What is the relationship between the test results presented in `INFO/RPB`, `INFO/MQB`, `INFO/BQB`, `INFO/MQSB` and the p-values reported in `INFO/PV4`? Are these calculations documented somewhere? Are…
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I generated several vcf files using `bcftools mpileup`, and merged the output into one multi-sample file. Here is a representative line:
```
chrM 7 . A ,C 0 . I16=728,1296,0,0…
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I would like to suggest an enhancement to `bcftools call -C alleles`. The `targets.tsv.gz` file that can be supplied using `-T` is not very intuitive. Would it be possible to allow one to supply a VCF…