nickjcroucher / gubbins
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
☆190Updated last month
Alternatives and similar repositories for gubbins
Users that are interested in gubbins are comparing it to the libraries listed below
Sorting:
- BSR-Based Allele Calling Algorithm☆143Updated last month
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆223Updated 2 years ago
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆146Updated last month
- A user-friendly workflow for phylogenomics☆213Updated this week
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆115Updated 2 months ago
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆211Updated 3 weeks ago
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data☆147Updated last week
- Bacterial ribosomal RNA predictor☆243Updated last year
- An updated pipeline for pangenome investigation☆298Updated 2 months ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆127Updated last week
- Assessing the quality of metagenome-derived genome bins using machine learning☆206Updated last month
- snipit: summarise snps relative to your reference sequence☆158Updated this week
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆126Updated this week
- A tool for generating consensus long-read assemblies for bacterial genomes☆320Updated 11 months ago
- HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.☆134Updated last year
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆95Updated last month
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆114Updated 11 months ago
- ☆208Updated 3 months ago
- Pan-genome wide association studies☆195Updated 11 months ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆122Updated last year
- Metagenomic classification of long-read sequencing data☆83Updated this week
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆223Updated 2 months ago
- Convert various sequence formats to FASTA☆135Updated 2 years ago
- MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes☆123Updated 6 months ago
- Pairwise SNP distance matrix from a FASTA sequence alignment☆135Updated last year
- Tool to plot synteny and structural rearrangements between genomes☆303Updated last month
- customizable pipeline to identify viral sequences from (meta)genomic data☆248Updated 5 months ago
- Massively parallel phylogenetic placement of genetic sequences☆83Updated 2 years ago
- A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework☆103Updated last month
- DAS Tool☆147Updated last year