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Hi,
Two potential issues I'm struggling with.
1: The MSA step is producing millions of files, one for each potential fragment. This is really hampering performance and taking up lots of space. 1gb o…
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RTAX currently appears to have a memory cap at ~4GB and the qiime wrapper runs indefinitely without outputting an error message.
e.g., the following command runs indefinitely without error output:
>…
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Hi, I was wondering whether it was considered putting the software to (bio)conda?
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Hi,
When trying the Pipecraft v.1.0.0 NextITS workflow I get the following error messages:
```
N E X T F L O W ~ version 23.04.1
Launching `/scripts/NextITS/Step2_AggregateRuns.nf` [admiring…
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I am running Mutect2 on Illumina amplicon data and observe that the computed allelic depths don't correspond to what I see in IGV or via samtools mpileup. Importantly, this seems to strongly affect th…
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Hi there,
I'm very excited to try using `decontam`, but I'm not sure it'll work with our data. I'd be grateful for any advice.
I've got the following `phyloseq` object (16 true samples and 5 con…
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Hi brendaf
I have a dataset of ~140,000 ASVs that I want to tun through optimotu. The ASVs have been assigned taxonomy. Do you have any examples or recommendations for preparing the ASVs before run…
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Running CNVkit call with default pramaters I got excessive loss call so I have tried using –ploidy 3 then –ploidy 4 and 5. I was expecting some changes on the results but they were the same. Would you…
CKZan updated
2 years ago
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Dear Authors
I tried to install Nimbus on my personal computer (Mac Book pro) and it failed at the "make" step
please see the error below. I am not very familiar with C compilers but my searches…
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**Dataset title**
Genome Taxonomy Database (GTDB)
**Dataset contact & access**
https://gtdb.ecogenomic.org/
https://data.ace.uq.edu.au/public/gtdb/data/releases/latest/ar122_taxonomy.tsv
https:…