c2-d2 / distyLinks
Disty McMatrixface - compute a distance matrix from a core genome alignment file
☆14Updated 2 years ago
Alternatives and similar repositories for disty
Users that are interested in disty are comparing it to the libraries listed below
Sorting:
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- TAXnomic Profile Aggregation and STAndardisation☆41Updated last week
- Generate basic stats for an assembly.☆13Updated 2 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆46Updated 2 years ago
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆12Updated last year
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 5 months ago
- frame-shift correction for long-read (meta)genomics☆34Updated last year
- MetagenOmic read Re-Assigner and abundance quantifier☆19Updated 7 months ago
- Utility to analyse a group of closely related MAgs/Genomes/bins/SUBs of more or less dubious origin☆15Updated 11 months ago
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated 2 months ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆27Updated last month
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- Genome size estimation from long read overlaps☆59Updated last week
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆23Updated 2 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Recombination-free trees☆59Updated 5 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated this week
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Output FASTQ summary statistics in JSON format☆30Updated 2 years ago
- Intra-species bacterial contamination detection☆25Updated 6 months ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆24Updated last year
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated 2 weeks ago
- software to identify primers that can distinguish genomes☆21Updated 7 months ago
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Updated 4 years ago
- Detect contigs of complete circular genomes☆23Updated 6 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆29Updated last year
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆26Updated last year