Graph-based assembly phasing
☆93Nov 25, 2025Updated 4 months ago
Alternatives and similar repositories for strainy
Users that are interested in strainy are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.☆212Mar 3, 2026Updated last month
- Correcting errors in noisy long reads using variation graphs☆51Nov 17, 2022Updated 3 years ago
- 🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs☆69Sep 26, 2024Updated last year
- A new high-resolution long-read metagenome assembler for even noisy reads☆145Apr 5, 2026Updated last week
- Reorients assembled microbial sequences☆136Aug 21, 2025Updated 7 months ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Plasmid analysis using rearrangement distances☆50Apr 8, 2026Updated last week
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Apr 26, 2025Updated 11 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆66Apr 10, 2025Updated last year
- Hybrid error correction of long reads using colored de Bruijn graphs☆108Jan 17, 2026Updated 3 months ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆86Jan 24, 2026Updated 2 months ago
- Assemble bacterial isolate genomes from Nanopore reads☆130Jan 22, 2025Updated last year
- Automated strain separation of low-complexity metagenomes☆52Nov 10, 2021Updated 4 years ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆149Jan 9, 2026Updated 3 months ago
- Python package for detection of chimerism and contamination in prokaryotic genomes.☆87Mar 12, 2026Updated last month
- Deploy open-source AI quickly and easily - Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- A tool for generating consensus long-read assemblies for bacterial genomes☆225Apr 8, 2026Updated last week
- Assessing the quality of metagenome-derived genome bins using machine learning☆252Mar 20, 2025Updated last year
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆248Oct 12, 2025Updated 6 months ago
- A hybrid assembly and MAG recovery pipeline (and more!)☆106Updated this week
- Basecalling configuration prediction through FASTQ files☆33Mar 17, 2026Updated last month
- High-quality Nanopore-only genome polisher☆70Aug 16, 2024Updated last year
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆35Apr 23, 2025Updated 11 months ago
- a short-read polishing tool for long-read assemblies☆212Sep 19, 2025Updated 7 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆65Jun 16, 2025Updated 10 months ago
- Serverless GPU API endpoints on Runpod - Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of …☆242Updated this week
- Genome size estimation from long read overlaps☆82Updated this week
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆44Aug 20, 2025Updated 7 months ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆301Feb 3, 2026Updated 2 months ago
- Pan-genome inference and genotyping with long noisy or short accurate reads☆119Dec 13, 2024Updated last year
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12May 22, 2024Updated last year
- ☆82Apr 10, 2026Updated last week
- Bioinformatics program inStrain☆184Mar 12, 2026Updated last month
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆54Oct 24, 2025Updated 5 months ago
- Deploy open-source AI quickly and easily - Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆41Sep 29, 2025Updated 6 months ago
- Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasets☆25Feb 26, 2026Updated last month
- Ultra-fast preprocessing and quality control for long-read sequencing data☆226Sep 6, 2025Updated 7 months ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- ☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs☆37Oct 24, 2025Updated 5 months ago
- Quickly generate consensus assemblies for bacterial genomes☆14Sep 12, 2025Updated 7 months ago
- sunburst plots for taxonomy - working to update Krona☆44Sep 22, 2025Updated 6 months ago