☆19Nov 11, 2024Updated last year
Alternatives and similar repositories for pseudoR
Users that are interested in pseudoR are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆44Sep 3, 2024Updated last year
- ISCompare, an opensource program to identify Differentially Located Insertion Sequences☆14Apr 30, 2026Updated last week
- Analysing the genomic context of mobile genes☆11Jul 21, 2025Updated 9 months ago
- This is the supplementary code for CRC-multi-kingdom☆17Nov 8, 2021Updated 4 years ago
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆21Mar 18, 2026Updated last month
- 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.
- http://huttenhower.sph.harvard.edu/waafle☆24Feb 26, 2026Updated 2 months ago
- kMetaShot is an alignment-free taxonomic classifier based on k-mer/minimizer counting for MAGs☆11Apr 27, 2026Updated last week
- Visualize microbial evolution at the SNP level!☆15Aug 12, 2025Updated 8 months ago
- ☆25Apr 20, 2023Updated 3 years ago
- Code for the paper "Learning the fitness dynamics of pathogens from phylogenies"☆24Feb 26, 2026Updated 2 months ago
- ☆13Nov 5, 2023Updated 2 years ago
- ☆10Jun 9, 2025Updated 10 months ago
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 4 years ago
- ☆23Feb 7, 2022Updated 4 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Inferring global and local strict molecular clocks using root-to-tip regression☆15Apr 24, 2026Updated 2 weeks ago
- Neptune: Genomic Signature Discovery☆21May 1, 2026Updated last week
- Order and orientation of complete bacterial genomes☆29Jul 11, 2025Updated 9 months ago
- download isfinder database☆13Nov 9, 2018Updated 7 years ago
- Plot microbiome time series in parallel☆27Nov 7, 2023Updated 2 years ago
- Metabolic scanning and annotation of Metagenomes☆10Dec 18, 2025Updated 4 months ago
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Feb 26, 2020Updated 6 years ago
- MAGinator - Accurate SNV calling and profiling of MAGs☆27Mar 23, 2026Updated last month
- A repo to reproduce the experiments in the YACHT manuscript☆12Nov 2, 2023Updated 2 years 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.
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆18Jan 13, 2026Updated 3 months ago
- Repository for codes, analyses and visualizations for the CAMI II challenges☆14Sep 4, 2023Updated 2 years ago
- A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses☆21Feb 12, 2026Updated 2 months ago
- Transform files to the microtable object with microeco package☆28Feb 13, 2026Updated 2 months ago
- R implementation of the LEfSe method☆65Apr 29, 2026Updated last week
- This repository contains python classes and functions to quickly create a profiling tool for pathogen NGS data☆12Apr 21, 2026Updated 2 weeks ago
- ☆31Updated this week
- ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then sear…☆31Jan 24, 2025Updated last year
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.☆19Mar 25, 2026Updated last month
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Mutual nearest neighbor graphs for population structure inference and visualization☆18Dec 4, 2025Updated 5 months ago
- ☆16May 22, 2023Updated 2 years ago
- MAGqual is a command line tool to evaluate the quality of metagenomic bins and generate recommended metadata in line with the MIMAG stand…☆16Aug 28, 2024Updated last year
- A microbiome analysis toolkit for R☆26Aug 21, 2023Updated 2 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆39Mar 7, 2025Updated last year
- A library of Machine Learning tools to predict antibiotic resistance from NGS data☆18May 30, 2022Updated 3 years ago
- Support scripts for the visualisation of pangenome analyses in Graphia☆21Oct 7, 2024Updated last year