RCandy: an R package for visualising homologous recombination events in bacterial genomes
☆25Jun 17, 2022Updated 4 years ago
Alternatives and similar repositories for RCandy
Users that are interested in RCandy are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Analysing the genomic context of mobile genes☆11Jul 21, 2025Updated last year
- A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses☆21Feb 12, 2026Updated 6 months ago
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13May 15, 2018Updated 8 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆65Jun 16, 2025Updated last year
- Uses cDBG to count unitigs in bacterial populations☆19Feb 15, 2023Updated 3 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Feb 15, 2019Updated 7 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆68Jan 19, 2026Updated 7 months ago
- All scripts used for the analysis of the twilight of the pan-genome, and scripts available for others to apply similar analysis☆20Mar 30, 2021Updated 5 years ago
- Location of structural errors in a genome assembly and structural variations between a pair of genomes☆11Sep 27, 2019Updated 6 years ago
- ☆14Mar 28, 2018Updated 8 years ago
- Fast sequence distance estimates☆32Aug 24, 2026Updated 2 weeks ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆37Aug 21, 2026Updated 2 weeks ago
- HMmer Based UndeRstandinG of gene clustERs☆15Feb 6, 2026Updated 7 months ago
- Rapid determination of appropriate reference genomes.☆104Jan 22, 2025Updated last year
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- ☆15Mar 14, 2023Updated 3 years ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆37Jul 21, 2025Updated last year
- SEER, reimplemented in python 🐍🔮☆138Jul 23, 2026Updated last month
- An R package designed for drawing gene arrow maps☆101Sep 29, 2025Updated 11 months ago
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆21Mar 18, 2026Updated 5 months ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Feb 25, 2023Updated 3 years ago
- Population analysis PIPEline 🛠🧬☆26Mar 2, 2026Updated 6 months ago
- Bioinformatics tool for Locus Visualisation☆171Mar 30, 2026Updated 5 months ago
- A Whole Genome Alignment Visualization Tool for the Web☆45Apr 29, 2023Updated 3 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Within-species genome-wide dN/dS estimation from very many genomes☆24Oct 26, 2020Updated 5 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆40Aug 7, 2026Updated last month
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆675Aug 7, 2026Updated last month
- R package for microbial pangenomics☆25Apr 12, 2022Updated 4 years ago
- Gene cluster comparison figure generator☆653Dec 22, 2025Updated 8 months ago
- IS mapping software☆59Dec 3, 2021Updated 4 years ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆109Jun 2, 2026Updated 3 months ago
- Iterative Gene clUster Analysis, a high-throughput method for gene cluster family identification.☆20Aug 19, 2026Updated 2 weeks ago
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆27Sep 12, 2024Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Support scripts for the visualisation of pangenome analyses in Graphia☆21Oct 7, 2024Updated last year
- Gene-flank analysis tool☆37Dec 18, 2024Updated last year
- LexicMap: efficient sequence alignment against millions of prokaryotic genomes☆226Updated this week
- Homebrew formulae for bioinformatics software only available for Linux☆27Aug 23, 2019Updated 7 years ago
- Order and orientation of complete bacterial genomes☆29Jun 30, 2026Updated 2 months ago
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆84May 3, 2025Updated last year
- Methods to determine sequence element (unitig) presence/absence☆27Mar 6, 2026Updated 6 months ago