gtonkinhill / pairsnpLinks
A set of scripts for calculating pairwise SNP distance
☆42Updated 2 years ago
Alternatives and similar repositories for pairsnp
Users that are interested in pairsnp are comparing it to the libraries listed below
Sorting:
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆65Updated 2 years ago
- Assembling the cause of phenotypes and genotypes from NGS data☆29Updated 5 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Recombination-free trees☆59Updated 5 months ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆46Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆38Updated 4 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 4 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Strain Resolution ON Graphs☆48Updated 2 years ago
- Gene-flank analysis tool☆29Updated 8 months ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- ♥ Fast and Accurate Estimation of Evolutionary Distances☆29Updated 4 months ago
- Intra-species bacterial contamination detection☆25Updated 6 months ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆42Updated 5 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆32Updated 3 years ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- Genome size estimation from long read overlaps☆59Updated last week
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 5 months ago
- Discover and annotate the virome☆46Updated last month
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆27Updated last month
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- MAG Circularization Method☆33Updated 3 years ago