An automated assembly pipeline for microbial genomes
☆19May 18, 2026Updated this week
Alternatives and similar repositories for MGAP
Users that are interested in MGAP are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Program for finding horizontal gene transfer using BLAST result☆11May 26, 2023Updated 2 years ago
- rapid serotyping of Vibrio parahaemolyticus from whole genome sequencing data using serogroup-specific genes☆10Sep 2, 2021Updated 4 years ago
- rhierbaps: R implementation of hierBAPS☆36Feb 23, 2026Updated 3 months ago
- Scripts to analyze gene content and make a concatenated alignment of core genes from bacterial genomes.☆19Jul 20, 2018Updated 7 years ago
- Automated pipeline for whole bacterial genome analysis based on snakemake☆12May 16, 2022Updated 4 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.
- Assembling the cause of phenotypes and genotypes from NGS data☆29Jun 11, 2020Updated 5 years ago
- Retrieve HIVdb algorithm as XML and apply locally to HIV sequences☆13Mar 4, 2026Updated 2 months ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆40Apr 6, 2026Updated last month
- Whole genome core alignments from multiple draft genomes☆13Sep 14, 2016Updated 9 years ago
- R functions underlying OmicsNet☆20Apr 21, 2026Updated last month
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- A tooL for Prokaryotic Phylogeny And Clustering Analysis☆13Jul 28, 2025Updated 9 months ago
- Processing pipeline for pan-genome visulization and exploration☆145Oct 9, 2023Updated 2 years ago
- Large scale Blast Score Ratio (BSR) analysis☆36Nov 18, 2025Updated 6 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.
- Pairwise SNP distance matrix from a FASTA sequence alignment☆155Dec 31, 2025Updated 4 months ago
- Datamonkey - Run state-of-the-art statistical models through the comfort of your browser☆10May 8, 2026Updated 2 weeks ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆27Feb 6, 2023Updated 3 years ago
- t-distributed stochastic neighbor embedding for microbiota data☆12May 12, 2019Updated 7 years ago
- "Reads to report" for public health and clinical microbiology☆144Dec 9, 2025Updated 5 months ago
- All kinds of NGS analysis pipeline☆12Oct 10, 2019Updated 6 years ago
- Making whole bacterial genome sequencing data analysis easy☆113Apr 22, 2025Updated last year
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆30Jul 18, 2025Updated 10 months ago
- Django website project for common sequence search tools.☆17Apr 9, 2026Updated last month
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years ago
- A range of different perl scripts for manipulating sequences, conducting alignments, consensus sequences, changing formats☆28Dec 15, 2025Updated 5 months ago
- iMAP v1.0 (Pre-release): Integrated Microbiome Analysis Pipeline☆13Feb 10, 2026Updated 3 months ago
- Accurate read-based metagenome characterization using a hierarchical suite of unique signatures. Please visit our homepage:☆23Jan 29, 2019Updated 7 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Feb 15, 2019Updated 7 years ago
- Finding regions of similarity between plasmids☆17Nov 2, 2022Updated 3 years ago
- 16S rRNA marker gene upstream and dowstream analysis tutorial for the UCT Hex cluster.☆12Jan 15, 2021Updated 5 years ago
- Microbiome Classifier Pipeline for Pacific Biosciences 16s Data☆11Jan 22, 2024Updated 2 years ago
- hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance☆22Mar 8, 2024Updated 2 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.
- Provides a local database of in-house and published genomes for Bacteria and Archaea from NCBI☆24Sep 3, 2014Updated 11 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Aug 8, 2022Updated 3 years ago
- A Bayesian method for doing transcriptome assembly from RNA-seq data☆25Feb 2, 2015Updated 11 years ago
- This repository houses the code to run SURPI+, a rapid computational pipeline for comprehensive identification of pathogens from clinical…☆43Nov 20, 2019Updated 6 years ago
- MFEprimer-2.0: A fast thermodynamics-based program for checking PCR primer specificity☆41Feb 16, 2021Updated 5 years ago
- Quantifying the significance of genetic variation using probabilistic profile-based methods.☆19Apr 21, 2021Updated 5 years ago
- Repo for PrimerSchemes☆17May 15, 2026Updated last week