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I am currently running your pipeline and would like to comment you a few problems I stumbled upon while following the readme.
Under 2. Downloading RESCUE Files:
`tar –xvzf ./databases.tar.gz --> doe…
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## Initial Request
### Goal
_Describe what you're trying to accomplish. This is the only necessary step to start this process. The Committee is available to assist with all other steps. Please cle…
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@gregcaporaso, @audy and had a call earlier today. Just putting down some notes from the call:
- targeting marker gene
- primary goal is a scikit-learn implementation of the Naive Bayes classifier use…
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I built a Kraken1 database and I'm trying to generate the corresponding bracken distribution file.
Everything went well until I got a segmentation fault at STEP 4 (CONVERTING KMER MAPPINGS INTO REA…
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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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This dataset contains the hymenoptera family Chrysididae twice:
https://www.checklistbank.org/dataset/33631/names?facet=rank&facet=issue&facet=status&facet=nomStatus&facet=nameType&facet=field&face…
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This proposal is intended to help resolve several other open issues: #230 (Problems with Iptc4xmpExt:CVterm), #244 (Outdated Link in Notes for Iptc4xmpExt:CVterm), #200 (Term needed to designate when …
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Hi,
I am just started to work with metacoder, but I have a simple question. When I import a phyloseq object with parse phyloseq I can see the all components correctly imported. However, in the otu_t…
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First in a series of conversations with @JelleZijlstra, Connor Burgin, and @n8upham (Jan 21, 2023):
So far I have gone over Afrosoricida (just one issue) and Artiodactyla (a lot). My plan is to g…
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One thing I was still thinking about (probably more of a different issue):
Would it be possible to integrate GTDB into the standard workflow and then annotate based on the GTDB classification?
In …