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I have a collection of fn files for bacteria,How do I create my reference genome as a database?
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**Are you using the latest release?**
1.8.15+galaxy5, 1.8.17 (locally installed)
**Describe the bug**
I have been trying to run funannotate to make a consolidated annotation report based on the o…
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this isn't really a bcbio problem but i thought i would give a heads up:
using bcbio 1.9.0 bulk RNA-seq pipeline with BDGP6 genome, salmon crashes because some transcript lengths in the reference fas…
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Hello!
I address you because I want to perform a little experiment using graphs. I would like to make a string graph from several similar reference genomes. Once made, I would like to convert the str…
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Dear Andrew:
Can I use snp-sites to process the full FASTA data that I downloaded from GISAID, which has about 1,000,000,000 lines in total for ~2 million SARS-COV-2 genomes?
I run it on my lo…
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Mysteries of kmers: k=21 has divergent pattern from k=31 of the same species.
Using trim-low-abund did not make the pattern disappear, as long as everything ran right. It actually make the values …
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I'm having problems during the kmer classification step in `bayesTyper genotype` with both versions 1.4.1 and 1.5:
```
[19/10/2022 21:21:47] You are using BayesTyper (v1.4.1)
[19/10/2022 21:21:…
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Hi! I want to build a reference ctat-genome-lib using the genecode version 36. I was wondering if I can download the `GRCh38_gencode_v33_CTAT_lib_Apr062020.source` folder and then run the following co…
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Hello,
I am having two issues and need some help in resolving the issue.
(1) I have some strain genome sequences of single species (such as Bacteroides_fragilis.fa), is it possible to construct …
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Hi,
I am getting a errror "scipy.sparse.linalg.eigen.arpack.arpack.ArpackNoConvergence: ARPACK error -1: No convergence (77651 iterations, 66/100 eigenvectors converged)" when I rerun a one cluster…