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The following new test, introduced in https://github.com/samtools/bcftools/commit/3c1205c12b3854912c9a6dfe4b214524ea07f12a, fails on architectures where char is unsigned by default (e.g. ARM, POWER).…
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## Description
hello!
why does elementor use such a complex way to create a video for you tube?
many, many entries and lines of code written: several scripts, several calls to google video, several…
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I'm trying vcf-tools for the first time. I cloned it here from git, and installed it using...
EPREFIX="/tmp/vcftools/"
PREFIX="/tmp/vcftools/"
DATAROOTDIR="${PREFIX}/share"
DOCDI…
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I found a closed issue (https://github.com/samtools/bcftools/issues/156) on this topic, but it does not seem to be solved.
running the below causes an exception.
```
samtools mpileup -Ou -f /home/bc…
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Hi folks,
I am trying to do some basic variant calling using samtools and bcftools. For each variant, I want to extract the average Phred quality score of the alt allele. For example, the followin…
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samtools mpileup -g -t DP -f hs37d5.fa child.bam father.bam mother.bam -r 9 | dng dnm auto --ped Fam.ped --rd_cutoff 10 --output testFam.vcf --snp_mrate 2e-10 --indel_mrate 1e-11 --bcf -
DeNovoGear…
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sambamba_v0.5.6/./sambamba mpileup -t 25 -o sambamba.var.flt.vcf S246.merged.bam S247.bam S248.bam S249.bam S250.bam S251.bam S252.bam S253.bam S254.bam --samtools -ug -t DP -f index/Ntab.fa --bcftool…
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Hope this helps!
The VCF below throws an error. It has a single sample. Trigger the error by running:
```
from cyvcf2 import VCF
v = VCF("in.vcf")
for record in v:
record.gt_bases()
``…
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**[Original report](https://bitbucket.org/whatshap/whatshap/issue/131) by madhubioinfo (Bitbucket: [madhubioinfo](https://bitbucket.org/madhubioinfo), GitHub: [madhubioinfo](https://github.com/madhubi…
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Hello,
I have problem during installation - after adding all depencies (Htslib and Eigen), I am able to perform cmake step with this output:
```
-- DeNovoGear version is 1.1.1-unknown
-- Boost…