wu-lab-uva / AMPHORA2Links
An Automated Phylogenomic Inference Pipeline for Bacterial and Archaeal Sequences.
☆35Updated 6 years ago
Alternatives and similar repositories for AMPHORA2
Users that are interested in AMPHORA2 are comparing it to the libraries listed below
Sorting:
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆81Updated 2 years ago
- A toolbox for comparative genomics.☆108Updated 4 years ago
- In this repo you will find demos and tutorials prepared by members of the CBIB. Feel free to use them for non-commercial activities given…☆84Updated 7 years ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆75Updated last year
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆89Updated 2 years ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆125Updated 2 weeks ago
- Making whole bacterial genome sequencing data analysis easy☆113Updated 9 months ago
- DDBJ Fast Annotation and Submission Tool☆84Updated last week
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆120Updated last year
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆124Updated 2 years ago
- Development version of Easyfig☆104Updated 2 years ago
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆65Updated 6 years ago
- Pipeline for metabolic annotation of microbial genomes☆150Updated 10 months ago
- A scalable bacterial genome assembly, annotation and analysis pipeline☆74Updated 2 years ago
- Scripts and tutorials on how to assemble individual microbial genomes from metagenomes☆80Updated 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
- Collection of scripts for bacterial genomics☆48Updated 6 years ago
- CLI tool to annotate genes with KOfam☆88Updated 2 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆57Updated 9 months ago
- Horizontal gene transfer (HGT) identification pipeline☆67Updated 2 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆68Updated 4 years ago
- Bioinformatics tool to find integrons in bacterial genomes☆83Updated 9 months ago
- A toolbox for improving metagenome-assembled genomes.☆64Updated 4 years ago
- Source code of the VirSorter tool, also available as an App on CyVerse/iVirus (https://de.iplantcollaborative.org/de/)☆101Updated 5 years ago
- Recovery of prokaryotic genomes from shotgun metagenomic sequencing data☆62Updated 4 years ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆131Updated last year
- Massively parallel phylogenetic placement of genetic sequences☆86Updated 3 years ago
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆81Updated 9 months ago
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆87Updated last year
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies☆146Updated last month