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Hello, and thanks for your repository.
I have been looking at the data, and I see that all abundances accessible are relative abundance. I haven't found any way to download counts data. Is count dat…
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Data sets to compile for the MATSS project (and beyond):
- [ ] Hurlbert et al
- [ ] Yenni et al
- [ ] Adler et al
- [ ] Clarks
- [ ] Biotime
- [ ] eBird
- [x] Breeding Bird Survey
- […
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Continued with issue #404, I found that some pdb files don't have ATOM records at all in high quality ESM atlas. (I haven't checked full database.)
e.g.,
highquality_clust30_00.tar
./403/MGYP000179…
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I have been trying retrieve metadata (like location) for a complex query, but even on the ENA website that does not work in 1 step.
Goal is to retrieve all pure metagenomic dataset, so exclude amplic…
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Hello,
I'm using eggnog-mapper for a metagenomic pipeline with hmm searches.
For optimization, i'm using "--usemem" parameter, however the process seems to be stuck in "Waiting for server to bec…
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Hello @pmenzel
I had a soil metagenomic data that is very hard to classify due to lots of soil microorganism being uncharacterized. As a result I thought of using all the KAIJU databases so as to ge…
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Hi there,
I'm wondering how the sample size would affect the accuracy of the results. Are there minimum sample size requirements? Let's say if I had four groups with 40, 30, 20, 10 sample size res…
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Hello,
I'm trying to run NanoCLUST with my 16S sequence data. I run it on a Linux CentOS 7 machine.
Also with the test data I get an error reaching the 'consensus_classification' module:
When I u…
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Hi there,
I am seeing very low mapping rates (~10-15%) for my whole genome sequencing data using Kraken 2. Samples are gut microbiome samples from patients with heart disease, sequenced on Illumina…
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**What topic do you wish to add?**
A domain overview page discussing general data management considerations regarding sequencing is currently missing.
Some of this is presently reported in "marine …