dada2 VS GTDBTk

Compare dada2 vs GTDBTk and see what are their differences.

dada2

Accurate sample inference from amplicon data with single nucleotide resolution (by benjjneb)
microbiome Bioinformatics bioconductor taxonomy amplicon metagenomics metabarcoding
Source Code
benjjneb.github.io
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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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dada2 GTDBTk
1 1
453 437
- 4.8%
4.3 7.5
4 months ago 23 days ago
R Python
GNU Lesser 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.
Stars - the number of stars that a project has on GitHub. Growth - month over month growth in stars.
Activity is a relative number indicating how actively a project is being developed. Recent commits have higher weight than older ones.
For example, an activity of 9.0 indicates that a project is amongst the top 10% of the most actively developed projects that we are tracking.

dada2

Posts with mentions or reviews of dada2. We have used some of these posts to build our list of alternatives and similar projects.

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.

What are some alternatives?

When comparing dada2 and GTDBTk 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).

TCGAbiolinks - TCGAbiolinks

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

rBLAST - Interface for the Basic Local Alignment Search Tool (BLAST) - R-Package

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

MicrobiomeStat - Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat

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

bakta - Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

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

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

dada2 vs kraken-biom GTDBTk vs kraken-biom dada2 vs TCGAbiolinks GTDBTk vs CAT_pack dada2 vs rBLAST GTDBTk vs MMseqs2 dada2 vs MicrobiomeStat GTDBTk vs classify-genomes dada2 vs MMseqs2 GTDBTk vs bakta GTDBTk vs pyani GTDBTk vs phantasm