An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences
☆27Aug 8, 2022Updated 4 years ago
Alternatives and similar repositories for GeneMates
Users that are interested in GeneMates are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Searching for Horizontal Gene Transfer☆10Feb 22, 2020Updated 6 years ago
- A novel bioinformatics pipeline for recent horizontal gene transfer detecting.☆12Nov 13, 2018Updated 7 years ago
- ☆38Apr 14, 2022Updated 4 years ago
- Program for finding horizontal gene transfer using BLAST result☆11May 26, 2023Updated 3 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Feb 3, 2021Updated 5 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.
- Plascad is a computationally efficient tool designed for plasmids classification, antibiotic resistance genes (ARGs) annotation and plasm…☆52Feb 2, 2021Updated 5 years ago
- A simulator for horizontal gene transfer (HGT) in microbial communities☆10Oct 5, 2020Updated 5 years ago
- ☆13Sep 4, 2017Updated 9 years ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆47Aug 20, 2025Updated last year
- transposable element typing pipeline☆20Mar 8, 2024Updated 2 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆89Aug 24, 2026Updated last week
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆15Aug 26, 2024Updated 2 years ago
- Bioinformatics tool to find integrons in bacterial genomes☆94May 7, 2025Updated last year
- Finding regions of similarity between plasmids☆17Jul 15, 2026Updated last month
- 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.
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 5 years ago
- Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.☆129Aug 6, 2026Updated 3 weeks ago
- A simple-to-use tool for visualizing and comparing genome contexts for numerous genomes☆18Dec 1, 2025Updated 9 months ago
- Horizontal gene transfer (HGT) identification pipeline☆70May 17, 2023Updated 3 years ago
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆224Aug 27, 2025Updated last year
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆67Updated this week
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆99Dec 9, 2025Updated 8 months ago
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆14Feb 9, 2025Updated last year
- Uses cDBG to count unitigs in bacterial populations☆19Feb 15, 2023Updated 3 years 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.
- rhierbaps: R implementation of hierBAPS☆36Feb 23, 2026Updated 6 months ago
- An updated pipeline for pangenome investigation☆374Jul 2, 2026Updated 2 months ago
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆10Mar 10, 2026Updated 5 months ago
- An easy way of MLSTyping your genomes in R.☆19Dec 21, 2020Updated 5 years ago
- Whole genome core alignments from multiple draft genomes☆13Sep 14, 2016Updated 9 years ago
- A simple program for evaluate the assembly of a give genome.☆18Mar 3, 2023Updated 3 years ago
- A toolkit to validate and consolidate antimicrobial resistance gene databases☆20Apr 21, 2023Updated 3 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆68Jan 19, 2026Updated 7 months ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆47Sep 3, 2020Updated 6 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13May 15, 2018Updated 8 years ago
- Targeted Detection and Reconstruction of Plasmids☆22May 7, 2024Updated 2 years ago
- Assembling the cause of phenotypes and genotypes from NGS data☆29Jun 11, 2020Updated 6 years ago
- Automatic evaluation of HGTs☆32Jan 31, 2025Updated last year
- A pipeline for running AMRfinderPlus and collating results into functional classes☆102Updated this week
- Plasmid exploration of bacterial genomes☆27Mar 2, 2022Updated 4 years ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆42Feb 9, 2022Updated 4 years ago