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Feature Request.
Please add uncompressed bam output to cat/rmdup commands.
sort/merge commands have the uncompressed bam output function already.
We need the uncompressed bam to speed up proce…
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Hi,
I want to fix my data with the reference data using bcftools. However, I am getting the following error "[E::bgzf_read_block] Failed to read BGZF block data at offset 33357268 expected 7939 byt…
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Hi,
I'm trying to phase rare variants, which goes well for the greatest part. I used the files and instructions you provided in the [documentation](https://odelaneau.github.io/shapeit5/docs/tutoria…
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```
typing make to compile on my system (Ubuntu desktop 64 bit, 11.10) is giving
the following output with Error 1 and Error2
Upon giving command "make", I expect to compile the BSMAP. However, the …
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Hi,
I am running it on a bam file but the error message told me it could be truncated. I am seeking a way how to skip these errors.
Slight data loss is acceptable.
`[W::bam_hdr_read] EOF ma…
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```
Hello,
I am trying to calculate the mapping statistics of a BAM file. I am using
SAMtools 1.3.1 and am able to get statistics on the BAM file using samtools
flagstat. However, when I try sam…
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Excellent package!
I have prototyped a few solutions to use this to apply ML classification of called variants and do filtering.
This is more of a feature request. Just wanted to add that VCFs sh…
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```
typing make to compile on my system (Ubuntu desktop 64 bit, 11.10) is giving
the following output with Error 1 and Error2
Upon giving command "make", I expect to compile the BSMAP. However, the …
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For context, please read what [BGZF is about first](https://blastedbio.blogspot.com/2011/11/bgzf-blocked-bigger-better-gzip.html).
Also, for a good BGZF sample file to reproduce and fix this issue,…
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**[Original report](https://bitbucket.org/whatshap/whatshap/issue/151) by Tobias Marschall (Bitbucket: [tobiasmarschall](https://bitbucket.org/tobiasmarschall), GitHub: [tobiasmarschall](https://githu…