GTDB-Tk is described in: Chaumeil PA, et al. 2022.GTDB-Tk v2: memory friendly classification with the Genome Taxonomy Database.Bioinformatics, btac672. Chaumeil PA, et al. 2019.GTDB-Tk: A toolkit to classify genomes with the Genome Taxonomy Database.Bioinformatics, btz848. ...
Ecogenomics/GTDBTk: GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes. (github.com) https://github.com/Ecogenomics/GTDBTk GTDB- tk是一个基于基因组数据库分类法GTDB的软件工具包,用于分配细菌和古细菌基因组的客观分类分类。它的设计目的是利用最近的进展,...
GTDB-Tk v1.0.2 has been released (we recommend all users update to this version) Fixed an issue where FastANI threads would timeout withFastANI returned a non-zero exit code. Versions affected: 1.0.0, and 1.0.1. Note (Dec 5, 2019): ...
Ecogenomics/GTDBTk: GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes. (github.com) https://github.com/Ecogenomics/GTDBTk GTDB- tk是一个基于基因组数据库分类法GTDB的软件工具包,用于分配细菌和古细菌基因组的客观分类分类。它的设计目的是利用最近的进展,...
GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes. bioinformatics nomenclature taxonomy metagenomics phylogenetics bacteria archaea species-assignments Updated Dec 2, 2024 Python benjjneb / dada2 Star 485 Code Issues Pull requests Accurate sample inf...
GTDB-Tk App Python 4 9 kb_djornl Public A KBase module wrapper and visualization for RWR tools which use the random walk with restart method on multiplex coexpression networks representing genes (nodes) and distinct lines of evidence (ed… Python 4 4 PangenomeOrthomcl Public Python ...
GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes. bioinformaticsnomenclaturetaxonomymetagenomicsphylogeneticsbacteriaarchaeaspecies-assignments UpdatedDec 2, 2024 Python benjjneb/dada2 Star477 Code Issues ...
Taxonomic assignment withGTDB-tk Relative abundances withbwaandsamtools Reconstruct & evaluate genome-scale metabolic models withCarveMeandmemote Species metabolic coupling analysis withSMETANA Bonus Growth rate estimation withGRiD,SMEGorCoPTR Pangenome analysis withroary ...
微生物基因组分类数据库GTDB和软件GTDB-Tk 2.4 Feature table (认识特征表) 特征表是上游大数据分析的终点,是里程碑式的成果,同时也是下游分析的起始。 BIOM:生物观测矩阵(特征表)——微生物组数据通用数据格式 3.Visualization and interpretation (特征表的统计、可视化和解读) 扩增子图表解读-理解文章思路 扩增子...