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### Operating System
Ubuntu 22.04
### Other Linux
_No response_
### Workflow Version
v1.0.0-gc66a485
### Workflow Execution
Command line
### EPI2ME Version
_No response_
### CLI command run
…
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Hello,
I'm interested in finding ways to speed up the microbiome simulation process using CamiSim. I have a host genome and 20 bacterial genomes, totaling around 1.1 GB in size. My goal is to creat…
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(Part of review thread https://github.com/openjournals/joss-reviews/issues/6062)
Overall, the paper reads well, and I am convinced of your pipeline's value both in terms of
need for the community…
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I've tried running MicrobeMod on a few of my strains and it runs well and the output makes sense. However, in looking at the STREME output and the text produced by MicrobeMod, I don't understand why a…
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**Note** that the “memo” for this, final week is motivated by the following prompt:
**Imagine 2051.** Use the materials and medium (or media) of your choice to create one modest object that belongs…
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Hello,
I ran `GTDB-Tk v1.7.0` on 246 genomes using the command:
`gtdbtk classify_wf --genome_dir ${LOCAL}/Genomes/ --out_dir ${LOCAL}/GTDB_OUT --extension $binExtension --cpus $coreNum`,
but …
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Hello Kristoffer,
There is a situation where reads are mapped to very close references (e.g., reference sequences are 90% or more similar to each other). For example, a bacterial community (mixed s…
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Hello,
I have been having an issue with a couple of genomes where the results do not contain all of the output files especially, the annot.aa and the .gbk files. I have looked at the log files and …
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### Operating System
Ubuntu 22.04
### Other Linux
_No response_
### Workflow Version
v0.4.0-g70714be
### Workflow Execution
Command line
### EPI2ME Version
_No response_
…
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Running v. 2.0.3
```
reademption align -p 40 --poly_a_clipping -f analysis_reademption -q -g -S
reademption coverage -f analysis_reademption -p 40
```
In the coverage files, a constant value…