Desktop tool for microbial genome annotation and gene detection
☆13Jun 22, 2021Updated 5 years ago
Alternatives and similar repositories for pathogenie
Users that are interested in pathogenie are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Fast and accurate tool for calculating Average Nucleotide Identity (ANI) among virus and bacteria genomes☆13Sep 12, 2026Updated last month
- Shared k-mer content between two genomes☆19Jun 21, 2023Updated 3 years ago
- Assort phage protein sequences into phamilies using MMseqs2☆12Dec 16, 2024Updated last year
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆39Dec 20, 2024Updated last year
- A simple program to classify the lifestyle of phages.☆18May 22, 2023Updated 3 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.
- Bioinformatics tool to find integrons in bacterial genomes☆95May 7, 2025Updated last year
- scripts to automate illumina secondary analysis pipeline☆10Nov 2, 2019Updated 6 years ago
- Small utility script to submit genomes to PHASTER for phage detection☆26Oct 21, 2021Updated 5 years ago
- ☆20Nov 17, 2022Updated 3 years ago
- Benchmark and toy datasets☆12Jan 8, 2025Updated last year
- Calculate fastq reads and sequencing coverage☆15Oct 20, 2020Updated 6 years ago
- Short course describing the considerations for a successful RNA-seq experiment☆19Mar 20, 2026Updated 7 months ago
- Phage Annotation Workshop 2021☆14Dec 6, 2021Updated 4 years ago
- A taxonomic classifier of plasmids☆32Jul 7, 2021Updated 5 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.
- Python module for parsing, writing, aligning, and manipulating glycan structrures☆10Oct 7, 2026Updated 3 weeks ago
- de novo virus assembler of Illumina paired reads☆59May 17, 2021Updated 5 years ago
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆29Aug 20, 2025Updated last year
- Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.☆17Aug 31, 2026Updated last month
- abi2fastq is a small utility to convert Sanger sequencing reads in .abi (applied biosystems) format to FASTQ☆13Sep 19, 2017Updated 9 years ago
- For distributing patric related code☆28Dec 19, 2022Updated 3 years ago
- ☆16Apr 10, 2023Updated 3 years ago
- A Python3 script for removal of outlier sequences from a multiple sequence alignment (FASTA format).☆10Jul 6, 2026Updated 3 months ago
- GCN classifier for phage taxanomy classification☆32Nov 6, 2024Updated last year
- 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.
- detect temperate phage (active prophage) in assembled bacterial genome sequences☆15Feb 10, 2022Updated 4 years ago
- ☆10Feb 28, 2018Updated 8 years ago
- Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.☆31Feb 3, 2026Updated 8 months ago
- Assembling the cause of phenotypes and genotypes from NGS data☆30Jun 11, 2020Updated 6 years ago
- ☆10Jun 21, 2015Updated 11 years ago
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆28Feb 12, 2026Updated 8 months ago
- R integration for edlib, a C/C++ library for pairwise sequence alignment using edit distance (Levenshtein distance).☆11Jul 20, 2025Updated last year
- During outbreaks of emerging diseases such as COVID-19, efficiently collecting, sharing, and integrating data is critical to scientific r…☆35Oct 13, 2026Updated 2 weeks ago
- Lecture on viral phylodynamics☆11Oct 28, 2021Updated 5 years ago
- 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.
- Detect interesting SARS-CoV-2 spike protein variants from Sanger sequencing data.☆11Apr 15, 2022Updated 4 years ago
- Public Health England SNP calling pipeline.☆38Sep 4, 2018Updated 8 years ago
- Gene Absence Presence Identification tool.☆27Mar 28, 2025Updated last year
- Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure☆182Aug 10, 2026Updated 2 months ago
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆11Mar 10, 2026Updated 7 months ago
- draw sequence logos tailored to deep mutational scanning (DMS) data☆12Feb 12, 2026Updated 8 months ago
- Quantum computing "Hello World", using a letter search with Grover's algorithm and Qiskit.☆15Jan 28, 2023Updated 3 years ago