tseemann / snp-distsLinks
Pairwise SNP distance matrix from a FASTA sequence alignment
☆137Updated last year
Alternatives and similar repositories for snp-dists
Users that are interested in snp-dists are comparing it to the libraries listed below
Sorting:
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆115Updated last year
- "Reads to report" for public health and clinical microbiology☆141Updated last year
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆116Updated 3 weeks ago
- Making whole bacterial genome sequencing data analysis easy☆108Updated 2 months ago
- Create a tree using Mash distances☆167Updated 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…☆145Updated 2 months ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆131Updated 2 months ago
- BSR-Based Allele Calling Algorithm☆148Updated 3 weeks ago
- snipit: summarise snps relative to your reference sequence☆163Updated 2 months ago
- a signal-level demultiplexer for Oxford Nanopore reads☆126Updated 4 years ago
- Convert various sequence formats to FASTA☆136Updated 2 years ago
- Metagenomic classification of long-read sequencing data☆86Updated this week
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆202Updated 10 months ago
- Chromosome-level scaffolding using multiple references☆160Updated 10 months ago
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆152Updated 3 months ago
- A toolbox for pangenome analysis and threshold evaluation.☆98Updated 3 years ago
- A fast whole-genome aligner based on de Bruijn graphs☆151Updated last week
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆86Updated last year
- SKESA assembler☆120Updated 9 months ago
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆172Updated 4 years ago
- ☆127Updated 2 weeks ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆125Updated last year
- a short-read polishing tool for long-read assemblies☆171Updated last year
- Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data☆115Updated last year
- Long-read mock community experiments☆105Updated 3 years ago
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies☆137Updated 2 weeks ago
- Foreign Contamination Screening caller scripts and documentation☆131Updated 3 months ago
- The ARTIC field bioinformatics pipeline☆125Updated last month
- NanoCLUST is an analysis pipeline for UMAP-based classification of amplicon-based full-length 16S rRNA nanopore reads☆110Updated last year
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆122Updated last year