-
I'm using bracken in a pipeline, and I'm encountering some issues. I have used it before in the same system without any issue, so I'm a bit confused about this.
I'm running it on a report file tha…
-
Using image: `quay.io/biocontainers/shovill:1.1.0--0`
Run with default options
Error message:
```
[shovill] Correcting errors in spades.fasta
[shovill] Running: pilon --genome spades.fasta…
-
I've been recording some of this information in #384 but it seemed like a good idea to have a dedicated issue.
**Goal**: dom set differential abundance
**Need**: tractable catlas (# domsets ~= # g…
-
Dear @jenniferlu717
I have been using Bracken for a long time but recently something changed. I have clinical COVID RNAseq samples (380) and I realized that in many samples Bracken shows the abund…
-
Hi and thank you for the great software. I use mmseqs2 in a setting where identity matrix would make most sense. No matter what I try, though, an actual identity matrix does not work, giving "no kmers…
-
Computing the index on the 97% representative sequences is expensive, and easy to forget to do. It would be nice if a precomputed index were available in this repo.
-
I have an RNA seq that I need to assemble from PacBio and when I send the script the program do not pass the stage 2. I work with PACbio long read Hifi sequence that end up being all around 12 mil…
A-pcd updated
2 months ago
-
... because we ultimately want a map of the molecular evidence of an occurrence of a virus, not a map of the experiments that were performed
-
I am running different assemblies using different numbers of SMRT cells with hifiasm v0.13 on ccs hifi reads (corrected reads in fastq).
The sequences generated from homozygote diploid wheat
I have …
-
Hi,
I would like to calculate the genome size from the whole genome ONT nanopore reads (~8.7 GB) for a plant genome. My aim is to assemble the mitochondrial genome from ONT nanopore reads. I knew th…