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
- Uses cDBG to count unitigs in bacterial populations☆20Feb 15, 2023Updated 3 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆68Jun 16, 2025Updated last year
- A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses☆21Feb 12, 2026Updated 8 months ago
- All scripts used for the analysis of the twilight of the pan-genome, and scripts available for others to apply similar analysis☆21Mar 30, 2021Updated 5 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13May 15, 2018Updated 8 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆68Jan 19, 2026Updated 9 months ago
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆21Mar 18, 2026Updated 7 months ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆40Aug 21, 2026Updated 2 months ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆41Aug 7, 2026Updated 3 months ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Feb 25, 2023Updated 3 years ago
- Detection of pseudogene candidates in bacterial and archaeal genomes.☆53Mar 22, 2024Updated 2 years ago
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 7 years ago
- Rapid determination of appropriate reference genomes.☆103Jan 22, 2025Updated last year
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Within-species genome-wide dN/dS estimation from very many genomes☆25Oct 26, 2020Updated 6 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆45Jul 17, 2020Updated 6 years ago
- R package for microbial pangenomics☆25Apr 12, 2022Updated 4 years ago
- Location of structural errors in a genome assembly and structural variations between a pair of genomes☆11Sep 27, 2019Updated 7 years ago
- A python implementation of the joint ancestral state reconstruction algorithm of Pupko et al☆11Oct 18, 2018Updated 8 years ago
- SEER, reimplemented in python 🐍🔮☆141Oct 12, 2026Updated 3 weeks ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆51Sep 23, 2022Updated 4 years ago
- HMmer Based UndeRstandinG of gene clustERs☆15Feb 6, 2026Updated 9 months ago
- Fast sequence distance estimates☆35Updated this week
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆15Mar 14, 2023Updated 3 years ago
- IS mapping software☆59Dec 3, 2021Updated 4 years ago
- A Whole Genome Alignment Visualization Tool for the Web☆45Apr 29, 2023Updated 3 years ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆72Feb 23, 2026Updated 8 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆99Dec 9, 2025Updated 10 months ago
- ☆14Mar 28, 2018Updated 8 years ago
- Library of sketching functions used by PopPUNK☆29Jun 8, 2026Updated 4 months ago
- An R package designed for drawing gene arrow maps☆102Updated this week
- A set of scripts for calculating pairwise SNP distance☆45Feb 19, 2026Updated 8 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- A tool for the identification of coincident (associating and dissociating) genes in pangenomes.☆113Oct 20, 2023Updated 3 years ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆115Oct 12, 2026Updated 3 weeks ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆38Jul 21, 2025Updated last year
- Fast and accurate tool for calculating Average Nucleotide Identity (ANI) among virus and bacteria genomes☆13Sep 12, 2026Updated last month
- Gene-flank analysis tool☆37Dec 18, 2024Updated last year
- Population analysis PIPEline 🛠🧬☆28Mar 2, 2026Updated 8 months ago
- Bioinformatics tool for Locus Visualisation☆176Mar 30, 2026Updated 7 months ago