ProkEvo - an automated, reproducible, and scalable framework for high-throughput bacterial population genomics analyses.
☆18Aug 16, 2021Updated 4 years ago
Alternatives and similar repositories for ProkEvo
Users that are interested in ProkEvo are comparing it to the libraries listed below
Sorting:
- Bacterial analysis toolbox for full ESKAPE pathogen characterization and profiling the resistome, mobilome, virulome & phylogenomics usin…☆26Jan 30, 2025Updated last year
- Integrative virome pipeline☆13Nov 4, 2024Updated last year
- Computation of average nucleotide identity with the use of MMseqs2☆15Dec 11, 2024Updated last year
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆29Feb 12, 2026Updated 3 weeks ago
- The MLST pipeline developed by the PathOGiST research group☆36Nov 29, 2023Updated 2 years ago
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆49Feb 26, 2026Updated last week
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆38Sep 22, 2022Updated 3 years ago
- Minimum Bait Cover Toolkit Syotti.☆13Jan 22, 2025Updated last year
- Scripts and utilities for pangenomic/phylogenomic analysis of prokaryotic genomes. Scripts for the analysis of genomic features such as C…☆11May 28, 2021Updated 4 years ago
- Accurate metagenomi/metatranscriptomic analysis pipeline☆23Jun 28, 2021Updated 4 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆43Jul 17, 2020Updated 5 years ago
- Taxonomic classification of viruses at Order and Family level☆21Mar 1, 2023Updated 3 years ago
- Set of tools for viral metagenomics.☆14Jan 21, 2026Updated last month
- A Hierarchical Approach to Pangenomics Inference☆13Apr 15, 2024Updated last year
- Summarise nucleotide counts at a set of positions in a BAM file to search for mixtures☆13Apr 5, 2022Updated 3 years ago
- ☆15May 22, 2025Updated 9 months ago
- Bacterial Genomics workflow for short(Illumina) and long-read (Oxford Nanopore) sequencing data☆12Feb 20, 2026Updated 2 weeks ago
- Metagenomic Analysis in Real Time☆29Feb 25, 2026Updated last week
- Intra-species bacterial contamination detection☆25Feb 5, 2026Updated last month
- ☆45Jun 27, 2023Updated 2 years ago
- A Swiss-Army-Knife for Bioinformaticians☆14Updated this week
- A metatranscriptomic pipeline optimized for the study of microeukaryotes.☆17Dec 30, 2025Updated 2 months ago
- Perform taxonomic profiling analyses for long-read shotgun metagenomic datasets. Developed for the Long Read Sequencing Workshop 2022 at …☆13May 12, 2022Updated 3 years ago
- Development repository for R package 'PLSDAbatch ' hosted on Bioconductor.☆14Jan 6, 2026Updated 2 months ago
- Assort phage protein sequences into phamilies using MMseqs2☆11Dec 16, 2024Updated last year
- A nextflow version of the Wochenende reference metagenome binning and visualization pipeline☆15Dec 14, 2024Updated last year
- ☆26Jun 26, 2025Updated 8 months ago
- Microbial agile accurate SNP Typer☆30Dec 27, 2023Updated 2 years ago
- Discover and annotate the virome☆59Feb 11, 2026Updated 3 weeks ago
- Improvement of metagenome-assembled genomes☆55Mar 17, 2020Updated 5 years ago
- Automatic eukaryotic taxonomic classification☆29May 9, 2025Updated 9 months ago
- Population genomics from metagenomes☆13Sep 1, 2024Updated last year
- Processing support for Greengenes2☆14Jul 31, 2023Updated 2 years ago
- A Nextflow pipeline designed to classify, align and assemble nanopore metagenomic reads.☆17Mar 18, 2025Updated 11 months ago
- Documentation for analyzing SARS-Cov2 samples.☆12Jun 4, 2020Updated 5 years ago
- ARG normalization by mapping to the ARO ontology.☆62Jul 30, 2025Updated 7 months ago
- This is a repository for CAMPER.☆17Mar 18, 2024Updated last year
- DETONATE: DE novo TranscriptOme rNa-seq Assembly with or without the Truth Evaluation☆14Jun 22, 2016Updated 9 years ago