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Hello,
I've run Centrifuge on my data, and it generated two output files: classification.txt and report.tsv. I then created a kreport.tsv file from the classification.txt file. However, I've notice…
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"all arrays must be the same length"
Script appears to fail if SINTAX-formatted headers in the reference database are not padded with placeholder names for missing lower taxonomic ranks. However su…
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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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Hello!
I used UNITE to assign taxonomy.
When looking at the assignments some received:
- OTU_6 k__Fungi NA NA NA NA NA NA
- OTU_4 k__Fungi p__Fungi_phy_Incertae_sedis c__Fungi_cls_Incertae_sedi…
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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
4 months ago
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I have a couple hundreds of single amplified genomes from single cell assemblies which have low completeness (completeness
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Data of 2021-10-01 taken from sfg.taxonworks.org
File Isoptera_coldp_otu_id_585557_2021-10-01T14 26 11+00 00 imported 2021-10-11.
(see DEV report https://github.com/CatalogueOfLife/testing/issues…
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[This](https://snakemake.readthedocs.io/en/stable/tutorial/additional_features.html) should help.
- [ ] mohawk
- [ ] kraken2
- [ ] metaphlan2
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Hi,
I used kraken2 --db $kraken_DB s001.fa –use-names –report kraken_report –output kraken.out to generate the report and the output is below:
C NODE_61589_length_56_cov_4.000000 960…
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If it is a grouping class:
- Is It needed?
- Is classification under it complete?
- Is classification under it sustainable. Can we realistically populate classes - ideally with inferred classifica…