GTDBTk VS bakta

Compare GTDBTk vs bakta and see what are their differences.

GTDBTk

GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes. (by Ecogenomics)
taxonomy species-assignments Phylogenetics archaea bacteria nomenclature Bioinformatics metagenomics
Source Code
ecogenomics.github.io
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bakta

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids (by oschwengers)
Bioinformatics microbial-genomics genome-annotation bacteria bacterial-genomes plasmids metagenome-assembled-genomes Annotation mag
Source Code
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GTDBTk bakta
1 1
494 467
2.8% -
6.7 9.0
about 2 months ago about 1 month ago
Python Python
GNU General Public License v3.0 only GNU General Public License v3.0 only
The number of mentions indicates the total number of mentions that we've tracked plus the number of user suggested alternatives.
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GTDBTk

Posts with mentions or reviews of GTDBTk. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2021-08-11.

bakta

Posts with mentions or reviews of bakta. We have used some of these posts to build our list of alternatives and similar projects. The last one was on 2022-10-11.
  • orfs in DNA
    3 projects | /r/bioinformatics | 11 Oct 2022
    If you need more accurate ORF(CDS) prediction including functional annotation, I recommend using CLI tools such as prokka, bakta, or DFAST (DFAST is also available in a web version).

What are some alternatives?

When comparing GTDBTk and bakta you can also consider the following projects:

kraken-biom - Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWood/kraken).

prokka - :zap: :aquarius: Rapid prokaryotic genome annotation

CAT_pack - CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metagenomes

FastANI - Fast Whole-Genome Similarity (ANI) Estimation

dada2 - Accurate sample inference from amplicon data with single nucleotide resolution

QUEEN - QUEEN: a framework to generate quinable and efficiently editable nucleotide sequence resources

MMseqs2 - MMseqs2: ultra fast and sensitive search and clustering suite

dfast_core - DDBJ Fast Annotation and Submission Tool

classify-genomes - Classify a genome sequence according to the mOTUs/specI taxonomy

metaGEM - :gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data

pyani - Application and Python module for average nucleotide identity analyses of microbes.

phantasm - PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes

GTDBTk vs kraken-biom bakta vs prokka GTDBTk vs CAT_pack bakta vs FastANI GTDBTk vs dada2 bakta vs QUEEN GTDBTk vs MMseqs2 bakta vs dfast_core GTDBTk vs classify-genomes bakta vs metaGEM GTDBTk vs pyani GTDBTk vs phantasm
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