taxopedia
GTDBTk
| taxopedia | GTDBTk | |
|---|---|---|
| 4 | 1 | |
| 7 | 483 | |
| - | 1.4% | |
| 0.0 | 6.7 | |
| almost 3 years ago | 11 days ago | |
| Python | Python | |
| MIT License | GNU General Public License v3.0 only |
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taxopedia
GTDBTk
-
Bacteria taxonomy determination!URGENT!
I would try GTDB-Tk, mOTUs2, or CAT/BAT
What are some alternatives?
graphlan - High-quality circular representations of taxonomic and phylogenetic trees
kraken-biom - Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWood/kraken).
CAT_pack - CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metagenomes
ielex-data-and-tree - Data and scripts for producing a Baysian phylogenetic tree sample of for the Indo-European family which is "good enough", using data from IELex (Dunn et al. 2011).
dada2 - Accurate sample inference from amplicon data with single nucleotide resolution
Wikipedia-API - Python wrapper for Wikipedia
bakta - Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
Wikipedia-Article-Scraper - A complete Python text analytics package that allows users to search for a Wikipedia article, scrape it, conduct basic text analytics and integrate it to a data pipeline without writing excessive code.
MMseqs2 - MMseqs2: ultra fast and sensitive search and clustering suite
classify-genomes - Classify a genome sequence according to the mOTUs/specI taxonomy
pyani - Application and Python module for average nucleotide identity analyses of microbes.