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Hi!
In short: I have 26 paired-end metagenomic samples, with varying read counts between 500000 and 2000000 and I would like to classify them with DIAMOND. If I merge these queries to optimize the ru…
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**Metaxa2**: Improved Identification and Taxonomic Classification of Small and Large Subunit rRNA in Metagenomic Data
https://microbiology.se/software/metaxa2/
[doi:10.1111/1755-0998.12399](https:…
vmikk updated
2 months ago
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Project Lead: Muhammet Celik, Gokcen Sahin
Mentor: Mallory Freeberg
Welcome to OLS-2! This issue will be used to track your project and progress during the program. Please use this checkli…
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Hi SingleM team! I was wondering is it possible to drag out certian reads or know which reads are based on the taxonomy classification of SingleM? I am current consider using a smaller group of reads …
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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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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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**references**
- White JR, Nagarajan N, Pop M (2009). [Statistical Methods for Detecting Differentially Abundant Features in Clinical Metagenomic Samples](http://www.ploscompbiol.org/article/info%3Ado…
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Hi,
I'm using kraken2 to classify my metagenomic reads. For the database, I downloaded a prebuilt kraken database from Struo2 (http://ftp.tue.mpg.de/ebio/projects/struo2/GTDB_release207/kraken2/). …
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Hello, I have a question about classify:why not use kraken2(ultrafast metagenomic sequence classification using exact alignments)? In pipeline,determine the taxonomy of each bin with the Classify_bin…
wfgui updated
3 years ago
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I'd really like to use sourmash for metagenomic classification as in portik et al. I have been trying it out on small datasets and I've noticed that the gather step in particular seems to take a long …