pierrebarbera / epa-ngLinks
Massively parallel phylogenetic placement of genetic sequences
☆86Updated 3 years ago
Alternatives and similar repositories for epa-ng
Users that are interested in epa-ng are comparing it to the libraries listed below
Sorting:
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆88Updated 2 years ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆117Updated last year
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆80Updated 2 years ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆72Updated 2 years ago
- A toolbox for comparative genomics.☆108Updated 4 years ago
- Phylogenetic and taxonomic analysis for genomes and metagenomes☆82Updated 9 years ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆61Updated last year
- Best-fit model selection☆87Updated last year
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆123Updated last week
- Making whole bacterial genome sequencing data analysis easy☆114Updated 8 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆93Updated last month
- Protist Ribosomal Reference database (PR2) - SSU rRNA gene database☆85Updated last month
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆106Updated 11 months ago
- IS mapping software☆57Updated 4 years ago
- ☆84Updated 2 years ago
- ☆75Updated this week
- An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters☆95Updated last year
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆148Updated 3 months ago
- REference Sequence annotation and CuRatIon Pipeline☆98Updated 2 weeks ago
- A toolbox for pangenome analysis and threshold evaluation.☆100Updated 3 years ago
- GraftM - Rapid community profiles from metagenomes☆47Updated 2 months ago
- Using ggtree to build phylogenetic trees☆50Updated last year
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆64Updated 6 years ago
- Reorients assembled microbial sequences☆131Updated 4 months ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆57Updated 3 years ago
- Scripts and tutorials on how to assemble individual microbial genomes from metagenomes☆80Updated 9 years ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆146Updated last week
- DDBJ Fast Annotation and Submission Tool☆83Updated 4 months ago
- Sorts amplicons from Nanopore sequencing data based on similarity☆40Updated 3 months ago
- A tool for the identification of coincident (associating and dissociating) genes in pangenomes.☆109Updated 2 years ago