-
In my opinion, we should not fix this. (16 threads always)
At least, we have to provide an option for changing this number.
https://github.com/seqan/seqan/blob/master/include/seqan/stream/iostream_bg…
-
Hi velocyto team,
I ran 10x cell ranger count output files with the following commend. But no loom. file that supposed to be generated.
velocyto run10x /project/wilsonp/linda/319-5_prime /projec…
-
See: http://www.htslib.org/doc/bgzip.html. This should not be too hard if you keep the uncompressed and compressed byte offset of each block you are processing. Right now, I have to use `bgzip` to c…
-
- WhatsHap and Python version (`python -V` and `whatshap --version`)
- `whatshap`: 2.3
- `python`: 3.10.14
- How you installed the tool (conda, pip)
- conda
- Which command-line parameters…
-
Hi,
I am trying to map fastq files to transcript coordinates by using the --quantMode TranscriptomeSAM option. I run this on a cluster using slurm, and the job is always directly cancelled with th…
-
### Expected behaviour
BgzfWriter checks that a fileobj is writeable.
### Actual behaviour
BgzfWriter does not check that a fileobj is writeable.
### Steps to reproduce
```
>>> from Bi…
-
Hi,
I tried to create a tabix index from a Gencode compressed GFF3 file, specifically this one:
```
ftp://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_29/gencode.v29.annotation.gff3.…
-
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…
-
Hi. I downloaded the version containing both the FastQValidator and LibStatGen from:
https://genome.sph.umich.edu/w/images/2/20/FastQValidatorLibStatGen.0.1.1a.tgz
Then I unzipped the package. The…
-
Greetings,
I am the author of Genozip (www.genozip.com) - a software package for compressing FASTQ / BAM / VCF.
When compressing a fastq file, Genozip first inflates the gzip compression before…