xavierdidelot / ClonalFrameMLLinks
ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
☆114Updated last year
Alternatives and similar repositories for ClonalFrameML
Users that are interested in ClonalFrameML are comparing it to the libraries listed below
Sorting:
- Massively parallel phylogenetic placement of genetic sequences☆84Updated 2 years ago
- A toolbox for pangenome analysis and threshold evaluation.☆97Updated 2 years ago
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆85Updated last year
- Collection of scripts for bacterial genomics☆45Updated 5 years ago
- Making whole bacterial genome sequencing data analysis easy☆106Updated last month
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆127Updated 3 weeks ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆78Updated 9 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆88Updated 2 weeks ago
- A toolbox for comparative genomics.☆103Updated 4 years ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆115Updated 3 months ago
- DDBJ Fast Annotation and Submission Tool☆79Updated last month
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆121Updated last year
- Pairwise SNP distance matrix from a FASTA sequence alignment☆136Updated last year
- a short-read polishing tool for long-read assemblies☆166Updated 11 months ago
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆103Updated 4 months ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- Create a tree using Mash distances☆167Updated last year
- SKESA assembler☆119Updated 7 months ago
- Foreign Contamination Screening caller scripts and documentation☆129Updated 2 months ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆66Updated last year
- A scalable bacterial genome assembly, annotation and analysis pipeline☆74Updated last year
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆69Updated 11 months ago
- ☆71Updated last year
- Sorts amplicons from Nanopore sequencing data based on similarity☆38Updated last week
- ☆125Updated this week
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆123Updated last year
- IS mapping software☆54Updated 3 years ago
- Detection of pseudogene candidates in bacterial and archaeal genomes.☆49Updated last year
- Synteny Imager☆62Updated 9 months ago
- A tool for the identification of coincident (associating and dissociating) genes in pangenomes.☆101Updated last year