Assembling the cause of phenotypes and genotypes from NGS data
☆29Jun 11, 2020Updated 6 years ago
Alternatives and similar repositories for plasmidtron
Users that are interested in plasmidtron are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Python3 scripts to manipulate FASTA and FASTQ files☆73Mar 24, 2025Updated last year
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 6 years ago
- Whole genome core alignments from multiple draft genomes☆13Sep 14, 2016Updated 9 years ago
- A set of scripts for calculating pairwise SNP distance☆45Feb 19, 2026Updated 5 months ago
- de novo virus assembler of Illumina paired reads☆58May 17, 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.
- An automated assembly pipeline for microbial genomes☆19Jun 9, 2026Updated last month
- Antimicrobial Resistance Identification By Assembly☆186Oct 12, 2023Updated 2 years ago
- Multilocus sequence typing by blast using the schemes from PubMLST☆30Jun 23, 2022Updated 4 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
- transposable element typing pipeline☆19Mar 8, 2024Updated 2 years ago
- Large scale Blast Score Ratio (BSR) analysis☆36Nov 18, 2025Updated 8 months ago
- Scripts to analyze gene content and make a concatenated alignment of core genes from bacterial genomes.☆19Jul 20, 2018Updated 8 years ago
- "Reads to report" for public health and clinical microbiology☆144Dec 9, 2025Updated 7 months ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆57Jan 4, 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.
- Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.☆124May 29, 2026Updated last month
- Predict MLST directly from uncorrected long reads☆27Oct 31, 2025Updated 8 months ago
- ☆38Apr 14, 2022Updated 4 years ago
- De novo genome assembly and multisample variant calling☆113Mar 28, 2019Updated 7 years ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Feb 6, 2018Updated 8 years ago
- a collection of scripts for organising bacterial genomes by species☆80Mar 18, 2022Updated 4 years ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆30Jul 18, 2025Updated last year
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13May 15, 2018Updated 8 years ago
- Gene Absence Presence Identification tool.☆27Mar 28, 2025Updated last year
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- ☆78Jan 6, 2021Updated 5 years ago
- Code for Shipman et al. 2017☆13Jul 12, 2017Updated 9 years ago
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- A message queue for genomic surveillance☆20Oct 14, 2021Updated 4 years ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆124Aug 24, 2023Updated 2 years ago
- (Obsolete) NCBI Prokaryotic Genome Annotation Pipeline. New site:☆16Sep 7, 2018Updated 7 years ago
- ☆19Jan 16, 2024Updated 2 years ago
- Software for error-tolerant coding of information into DNA sequences using finite-state transducers.☆12Jan 8, 2017Updated 9 years ago
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆108Feb 6, 2025Updated last year
- 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.
- Haplotype-based somatic genome simulator☆10Apr 20, 2026Updated 3 months ago
- ARG normalization by mapping to the ARO ontology.☆67Jul 10, 2026Updated 2 weeks ago
- Mass screening of contigs for antimicrobial and virulence genes☆502Updated this week
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆26Jul 13, 2023Updated 3 years ago
- Pan-genome wide association studies☆219May 29, 2024Updated 2 years ago
- C++ package for analysing CRISPR off targets☆21Apr 26, 2021Updated 5 years ago
- rhierbaps: R implementation of hierBAPS☆36Feb 23, 2026Updated 5 months ago