Metagenomic Intra-Species Diversity Analysis (MIDAS)
☆44Sep 3, 2024Updated last year
Alternatives and similar repositories for MIDAS
Users that are interested in MIDAS are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆19Nov 11, 2024Updated last year
- MetaSNV, a metagenomic SNV calling pipeline.☆21Mar 25, 2022Updated 4 years ago
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated last year
- A Hierarchical Approach to Pangenomics Inference☆13Apr 15, 2024Updated 2 years ago
- Bioinformatics program inStrain☆190Mar 12, 2026Updated 3 months ago
- 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.
- Follow up to Grace Blackwell's 661k dataset, for 2023☆143Jun 10, 2026Updated 2 weeks ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆60May 24, 2026Updated last month
- RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches☆54Jun 9, 2026Updated 2 weeks ago
- ☆55Mar 29, 2026Updated 3 months ago
- An integrated pipeline for estimating strain-level genomic variation from metagenomic data☆135Oct 6, 2023Updated 2 years ago
- BEAV: Bacterial Element Annotation reVamped☆77Aug 21, 2025Updated 10 months ago
- Python package for detection of chimerism and contamination in prokaryotic genomes.☆90May 11, 2026Updated last month
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆312Feb 3, 2026Updated 4 months ago
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆19Jan 13, 2026Updated 5 months ago
- 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.
- ☆31Updated this week
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆41Feb 25, 2023Updated 3 years ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆254May 13, 2026Updated last month
- Computation of average nucleotide identity with the use of MMseqs2☆24Dec 11, 2024Updated last year
- MetaCompass: Reference-guided Assembly of Metagenomes☆43Jun 10, 2026Updated 2 weeks ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆52May 8, 2026Updated last month
- Visualize microbial evolution at the SNP level!☆15Aug 12, 2025Updated 10 months ago
- Rapidly extract reads from FASTX files based on taxonomic classification via Kraken2.☆15Jun 17, 2026Updated last week
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆14Aug 26, 2024Updated 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.
- A Python package for obtaining, parsing and exploring biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆51May 5, 2026Updated last month
- Genome size estimation from long read overlaps☆92Jun 22, 2026Updated last week
- A straightforward bioinformatic pipeline for detecting a bacterial strain in one or more metagenome(s).☆19Jul 10, 2018Updated 7 years ago
- More scalable dereplication for metagenome assembled genomes☆84Jun 20, 2026Updated last week
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆22Dec 9, 2025Updated 6 months ago
- Host depletion optimised for clinical metagenomic sequencing applications☆18May 18, 2026Updated last month
- Pathway-based and phylogenetically adjusted quantification of competition and cooperation between microbial species☆19Mar 17, 2021Updated 5 years ago
- Taxonomy classification of viral sequences / contigs☆12Jul 15, 2025Updated 11 months ago
- Precise host read removal☆124Apr 13, 2026Updated 2 months ago
- 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.
- Population genomics from metagenomes☆13Sep 1, 2024Updated last year
- MetagenOmic read Re-Assigner and abundance quantifier☆20Updated this week
- Unified Human Gut Virome Catalog☆47May 29, 2026Updated last month
- Bifrost graph gene caller.☆98Jun 18, 2026Updated last week
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Jun 11, 2026Updated 2 weeks ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆67Apr 10, 2025Updated last year
- Accurate metagenomic profiling && Fast large-scale sequence/genome searching☆216Apr 24, 2026Updated 2 months ago