Plasmid and antimicrobial resistance pipeline
☆16Sep 28, 2026Updated last month
Alternatives and similar repositories for pima
Users that are interested in pima are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A Python package for working with Bactopia☆12Aug 5, 2026Updated 2 months ago
- ISCompare, an opensource program to identify Differentially Located Insertion Sequences☆14Apr 30, 2026Updated 6 months ago
- A taxonomic classifier of plasmids☆32Jul 7, 2021Updated 5 years ago
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆13Jun 10, 2021Updated 5 years ago
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.☆21Oct 19, 2026Updated last week
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Python package to access and download data from the ATCC Genome Portal (https://genomes.atcc.org/)☆12Dec 23, 2025Updated 10 months ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆15Aug 26, 2024Updated 2 years ago
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated 2 years ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆44Jul 23, 2021Updated 5 years ago
- kMetaShot is an alignment-free taxonomic classifier based on k-mer/minimizer counting for MAGs☆12Oct 5, 2026Updated 3 weeks ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆28May 7, 2026Updated 5 months ago
- A simple script to run an alignment with nucmer and visualise its results.☆10Apr 17, 2023Updated 3 years ago
- Static website for the PH4AGE alliance☆14Oct 27, 2023Updated 3 years ago
- In silico Penicillin Binding Protein (PBP) typer for Streptococcus pneumoniae assemblies☆10Aug 6, 2024Updated 2 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.
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆36Oct 6, 2026Updated 3 weeks ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆23Apr 20, 2023Updated 3 years ago
- Finding prophage regions in bacterial genomes using brute force☆22Jan 20, 2023Updated 3 years ago
- Plot bacterial gene maps and genome comparison plots from command line with genoPlotR and GenomeDiagram☆13Mar 10, 2026Updated 7 months ago
- Easy-to-use web application for visualization and comparison of genomes in Genbank file☆22May 27, 2022Updated 4 years ago
- ☆10Apr 16, 2025Updated last year
- Targeted Detection and Reconstruction of Plasmids☆22May 7, 2024Updated 2 years ago
- Plasmid exploration of bacterial genomes☆28Sep 27, 2026Updated last month
- A pipeline for bioinformatics analysis of bacterial genomes☆33Oct 5, 2026Updated 3 weeks ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Nextflow version of SNVPhyl☆12Oct 24, 2024Updated 2 years ago
- whole genome MLST analysis☆57Jun 17, 2026Updated 4 months ago
- ☆26Apr 20, 2023Updated 3 years ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆158Jul 24, 2026Updated 3 months ago
- Intra-species bacterial contamination detection☆26Jul 10, 2026Updated 3 months ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 3 years ago
- zDB: comparative bacterial genomics made easy☆44Oct 1, 2026Updated 3 weeks ago
- Genome-wide gene gain/loss mapping tool using DTL(Duplication-Transfer-Loss) reconciliation method☆18Dec 29, 2022Updated 3 years ago
- plasmidVerify: plasmid contig verification tool☆15Apr 30, 2020Updated 6 years 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.
- Bioinformatics tool to find integrons in bacterial genomes☆95May 7, 2025Updated last year
- Finding regions of similarity between plasmids☆17Jul 15, 2026Updated 3 months ago
- CFSAN Shigella Typing Pipeline☆15Jun 11, 2026Updated 4 months ago
- Phigaro is a scalable command-line tool for predicting phages and prophages☆53Jan 8, 2024Updated 2 years ago
- An easy way of MLSTyping your genomes in R.☆19Dec 21, 2020Updated 5 years ago
- some useful scripts for working with genomics and sequencing data☆18Oct 31, 2019Updated 6 years ago
- A Python package to update the MLST database for the mlst tool.☆33Jul 22, 2026Updated 3 months ago