ChrispinChaguza / RCandyLinks
RCandy: an R package for visualising homologous recombination events in bacterial genomes
☆25Updated 3 years ago
Alternatives and similar repositories for RCandy
Users that are interested in RCandy are comparing it to the libraries listed below
Sorting:
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- Calculate assocations between genes and traits☆28Updated 6 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆42Updated 5 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆26Updated 3 years ago
- Gene-flank analysis tool☆30Updated 9 months ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 5 months ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆30Updated 2 months ago
- Genomewide Epistasis Analysis on Bacteria☆14Updated 4 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆62Updated 3 months ago
- Recombination-free trees☆60Updated last month
- Fast pairwise transmission inference from single genome and/or metagenomic data☆21Updated 2 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆30Updated last week
- Automated strain separation of low-complexity metagenomes☆50Updated 3 years ago
- Bacterial GWAS analysis☆43Updated 2 months ago
- Plasmid analysis using rearrangement distances☆45Updated last month
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 3 years ago
- Microbial agile accurate SNP Typer☆29Updated last year
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆66Updated 3 years ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆62Updated last year
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- MAGScoT - a MAG scoring and refinement tool☆36Updated 11 months ago
- Discover and annotate the virome☆53Updated this week
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated last year
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated last week
- Order and orientation of complete bacterial genomes☆28Updated 2 months ago
- Split Kmer Analysis☆65Updated 3 years ago
- IslandPath standalone software☆33Updated last year