Build a partitioned pangenome graph from microbial genomes
☆313Sep 18, 2026Updated this week
Alternatives and similar repositories for PPanGGOLiN
Users that are interested in PPanGGOLiN are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- An updated pipeline for pangenome investigation☆377Jul 2, 2026Updated 2 months ago
- Rapid comparison and dereplication of genomes☆357Sep 4, 2026Updated 2 weeks ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆681Aug 7, 2026Updated last month
- Reorients assembled microbial sequences☆146Jun 30, 2026Updated 2 months ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆264May 13, 2026Updated 4 months 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.
- Recombination-free trees☆73Jul 24, 2026Updated last month
- Gene cluster comparison figure generator☆655Dec 22, 2025Updated 9 months ago
- geNomad: Identification of mobile genetic elements☆334Mar 29, 2026Updated 5 months ago
- Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.☆130Aug 6, 2026Updated last month
- A grammar of graphics for comparative genomics☆782Sep 2, 2026Updated 2 weeks ago
- Read alignment statistics for metagenomics☆406Jul 10, 2026Updated 2 months ago
- Pan-genome wide association studies☆225May 29, 2024Updated 2 years ago
- Finding regions of similarity between plasmids☆17Jul 15, 2026Updated 2 months ago
- Pipeline for metabolic annotation of microbial genomes☆155Mar 20, 2025Updated last year
- 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.
- Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…☆433Updated this week
- A toolbox for pangenome analysis and threshold evaluation.☆102Jul 8, 2022Updated 4 years ago
- Accurate metagenomic profiling && Fast large-scale sequence/genome searching☆222Apr 24, 2026Updated 4 months ago
- A hybrid assembly and MAG recovery pipeline (and more!)☆119Sep 9, 2026Updated last week
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆111Jun 2, 2026Updated 3 months ago
- Bifrost graph gene caller.☆101Aug 31, 2026Updated 3 weeks ago
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆622May 20, 2026Updated 4 months ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆120Dec 13, 2024Updated last year
- AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and p…☆391Aug 31, 2026Updated 3 weeks ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- post processing of bacterial pangenome gene presence/absence matrices☆68Jan 19, 2026Updated 8 months ago
- a collection of scripts for organising bacterial genomes by species☆80Mar 18, 2022Updated 4 years ago
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆224Aug 27, 2025Updated last year
- A bioinformatic toolkit to align genome assemblies into pangenome graphs☆130Aug 19, 2026Updated last month
- A tool for generating consensus long-read assemblies for bacterial genomes☆348Jul 24, 2026Updated last month
- A flexible pipeline for complete analysis of bacterial genomes☆522Aug 5, 2026Updated last month
- Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!☆189Mar 17, 2026Updated 6 months ago
- A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.☆55Updated this week
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆268Jun 11, 2026Updated 3 months ago
- 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.
- Rapid large-scale prokaryote pan genome analysis☆380Nov 3, 2025Updated 10 months ago
- Mass screening of contigs for antimicrobial and virulence genes☆512Jul 17, 2026Updated 2 months ago
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆158Sep 2, 2026Updated 2 weeks ago
- Assessing the quality of metagenome-derived genome bins using machine learning☆279Mar 20, 2025Updated last year
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.☆110Jan 22, 2026Updated 8 months ago
- Synteny and Rearrangement Identifier☆490Jul 1, 2026Updated 2 months ago
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆81Sep 20, 2023Updated 3 years ago