-
Hello,
I would like to use racon to error-correct chloroplast (a subset of all reads, made by aligning all reads to the assembly containing cp contigs) PacBio CLR reads and I keep running out of memo…
-
-
Sample output from philologic load:
`1920-ENG19200—Lawrence-chapter_24 has no valid TEI header or contains invalid data: removing from database load...
1920-ENG19200—Lawrence-chapter_25 has no val…
-
I am experiencing issues with the sequence alignment of my FASTQ file with my amplicon sequence as I receive the following error message "It was not possible to align any read to the reference amplico…
-
```
ln -s ../../../inputs/gtdb_genomes/s__Bacillus_pumilus/*fna.gz bp_genomes/
cat *fna.gz > all_bp_genomes.fna.gz
cd ..
~/github/pufferfish/build/src/pufferfish index -r bp_genomes/all_bp_genomes…
-
Hi,
This is more of a question than an issue.
I was playing around with `mmseqs alignall` intending to see how it works. I think maybe it is in development.
I took a cluster I had and run `al…
-
Hello there,
May i ask you a question about the output HAL files, please? Am trying to use `h5diff` to compare 2 output files that are supposed to be the same (resulted from using the same configF…
-
If I use this in python
`list(SequenceMatcher(None, 'asfdsffdfd abcd', 'abcr').get_matching_blocks())`
I get this result
`[(0, 0, 1), (12, 1, 2), (15, 4, 0)]`
which is clearly wrong, because the long…
-
As I've been working on #549 to add support for SARS-CoV-2 references, I've had some trouble with running out of memory. I think it's partly that I'm running on equipment with less memory than I usual…
-
Hi
I have a question in regards to how GSAlign handles repeats, both hard-masked and soft-masked, and how it infers variants when generating the VCF file in regions where there are repeats. Does it…