kwongj / cfml-maskrcLinks
Masks recombinant regions in an alignment based on ClonalFrameML output
☆10Updated 7 years ago
Alternatives and similar repositories for cfml-maskrc
Users that are interested in cfml-maskrc are comparing it to the libraries listed below
Sorting:
- Interactive, web tool for exploring pan-genome of bacterial strains☆48Updated 2 years ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- Predict plasmids from uncorrected long read data☆41Updated this week
- Intra-species bacterial contamination detection☆25Updated 8 months ago
- Predict MLST directly from uncorrected long reads☆27Updated this week
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated this week
- Split Kmer Analysis☆65Updated 3 years ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 3 years ago
- Recombination-free trees☆60Updated 2 months ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Updated 3 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Locus and lineage tests for bacterial GWAS☆29Updated 8 years ago
- Whole genome core alignments from multiple draft genomes☆13Updated 9 years ago
- Comprehensive resistance detection from WGS data☆19Updated last month
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated 2 years ago
- ☆30Updated 2 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 6 years ago
- Calculate assocations between genes and traits☆28Updated 7 months ago
- Order and orientation of complete bacterial genomes☆29Updated 3 months ago
- Gene-flank analysis tool☆33Updated 10 months ago
- CFSAN Shigella Typing Pipeline☆15Updated 2 years ago
- Quantifying the significance of genetic variation using probabilistic profile-based methods.☆19Updated 4 years ago
- Colinear block visualisation tool☆31Updated last year
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 7 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- A tool for removing redundant genomes from a set of assemblies☆77Updated last month