A pipeline to computationally identify invertible DNA regions and quantify their orientations.
☆32Jan 11, 2024Updated 2 years ago
Alternatives and similar repositories for PhaseFinder
Users that are interested in PhaseFinder are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- strain-level analysis tools☆41Oct 21, 2024Updated last year
- some useful scripts for working with genomics and sequencing data☆18Oct 31, 2019Updated 6 years ago
- Identifying ViRal and Circular content in metAgenomes☆14Dec 13, 2018Updated 7 years ago
- Prophage Tracer: precisely tracing prophages in prokaryotic genomes using overlapping split-read alignment☆25Oct 16, 2024Updated last year
- Fast and sensitive discovery of complete phages and prophages in bacterial genome sequences☆23Dec 16, 2024Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- ☆13Updated this week
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆43Feb 9, 2022Updated 4 years ago
- ☆11Sep 16, 2020Updated 6 years ago
- detect temperate phage (active prophage) in assembled bacterial genome sequences☆15Feb 10, 2022Updated 4 years ago
- A simple script to run an alignment with nucmer and visualise its results.☆10Apr 17, 2023Updated 3 years ago
- ☆23Sep 19, 2025Updated last year
- From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)☆21Jul 8, 2024Updated 2 years ago
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 5 years ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆15Aug 26, 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.
- ☆33Jul 14, 2021Updated 5 years ago
- From metagenomes to epitopes and beyond☆12Sep 1, 2026Updated 3 weeks ago
- A repo to reproduce the experiments in the YACHT manuscript☆12Nov 2, 2023Updated 2 years ago
- Plasmid exploration of bacterial genomes☆27Mar 2, 2022Updated 4 years ago
- ISCompare, an opensource program to identify Differentially Located Insertion Sequences☆14Apr 30, 2026Updated 4 months ago
- Downstream processing of VAMB binning for Viral Elucidation☆55Jul 3, 2024Updated 2 years ago
- Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes☆77Aug 13, 2026Updated last month
- plasmidVerify: plasmid contig verification tool☆15Apr 30, 2020Updated 6 years ago
- GitHub template repository for creating new barebones Nextflow pipelines, using the Arcadia-Science/nextflow-template cookiecutter templa…☆13Mar 21, 2023Updated 3 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for…☆169Apr 23, 2025Updated last year
- Analysis of the population diversity of SARS-CoV-2 within and between individual patients☆15Apr 30, 2020Updated 6 years ago
- Plot bacterial gene maps and genome comparison plots from command line with genoPlotR and GenomeDiagram☆13Mar 10, 2026Updated 6 months ago
- ☆34Dec 20, 2023Updated 2 years ago
- skandiver is a program for identifying mobile genetic elements (prophages, plasmids, transposases, etc.) from assembled whole genome sequ…☆15Nov 20, 2025Updated 10 months ago
- Woltka: a versatile meta'omic data classifier☆81Sep 8, 2025Updated last year
- ☆16Aug 10, 2026Updated last month
- A simple program to classify the lifestyle of phages.☆18May 22, 2023Updated 3 years ago
- Plasmid and antimicrobial resistance pipeline☆16Sep 11, 2026Updated last week
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Rapid comparison and dereplication of genomes☆357Sep 4, 2026Updated 2 weeks ago
- ☆18Aug 27, 2026Updated 3 weeks ago
- wrangling and model-free analysis of microbial growth curve data in R with gcplyr☆39May 8, 2026Updated 4 months ago
- A scalable high-throughput metabolic and biogeochemical functional trait profiler☆234Mar 24, 2026Updated 5 months ago
- Plot genome alignment figure using progressiveMauve & genoPlotR☆22Aug 5, 2022Updated 4 years ago
- An easy way of MLSTyping your genomes in R.☆19Dec 21, 2020Updated 5 years ago
- Predict prokaryotic host for phage metagenomic sequences☆57Sep 17, 2024Updated 2 years ago