Autometa: Automated Extraction of Genomes from Shotgun Metagenomes
☆45Jan 24, 2025Updated last year
Alternatives and similar repositories for Autometa
Users that are interested in Autometa are comparing it to the libraries listed below
Sorting:
- Identify and remove contaminants from metagenome-assembled genomes☆18Feb 16, 2024Updated 2 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆27Jul 22, 2024Updated last year
- Discover and annotate the virome☆59Feb 11, 2026Updated last month
- A user-friendly workflow for phylogenomics☆225Feb 5, 2026Updated last month
- Microbiome classification pipeline☆67May 13, 2025Updated 10 months ago
- Bioinformatics program inStrain☆182Mar 12, 2026Updated last week
- This is a repository for CAMPER.☆17Mar 18, 2024Updated 2 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆54Sep 7, 2025Updated 6 months ago
- Unified Human Gut Virome Catalog☆41Nov 10, 2025Updated 4 months ago
- Bin Chicken - recovery of low abundance and taxonomically targeted metagenome assembled genomes (MAGs) through strategic coassembly☆72Mar 3, 2026Updated 2 weeks ago
- Pipeline for metagenome and metatranscriptome joint assembly☆20Mar 3, 2023Updated 3 years ago
- ☆23Feb 7, 2022Updated 4 years ago
- ☆57Mar 6, 2026Updated 2 weeks ago
- ☆24Dec 5, 2018Updated 7 years ago
- A metatranscriptomic pipeline optimized for the study of microeukaryotes.☆17Dec 30, 2025Updated 2 months ago
- diversity estimation under ecological networks☆83Jul 29, 2025Updated 7 months ago
- Discovery of conserved gene clusters in multiple genomes☆125Jan 16, 2026Updated 2 months ago
- A hybrid assembly and MAG recovery pipeline (and more!)☆104Jan 27, 2026Updated last month
- MAG Circularization Method☆32Nov 4, 2025Updated 4 months ago
- Assessing and Improving the quality of metagenomic assemblies☆31Feb 21, 2022Updated 4 years ago
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆89Oct 27, 2023Updated 2 years ago
- An algorithm for clustering metagenomic sequences.☆41Dec 12, 2025Updated 3 months ago
- SemiBin: metagenomics binning with self-supervised deep learning☆156Feb 19, 2026Updated last month
- Toolbox for comparative genomics of MAGs☆88Feb 24, 2026Updated 3 weeks ago
- This is a simple introductory tutorial to help you get started with using BEAST2 and its accomplices.☆11Jul 8, 2025Updated 8 months ago
- ☆70Mar 10, 2024Updated 2 years ago
- Basecalling configuration prediction through FASTQ files☆33Updated this week
- MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.☆15Mar 31, 2022Updated 3 years ago
- Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes☆71Dec 1, 2025Updated 3 months ago
- software to identify primers that can distinguish genomes☆20Jan 23, 2026Updated last month
- Plasmid and antimicrobial resistance pipeline☆16Dec 30, 2024Updated last year
- ☆42Feb 14, 2021Updated 5 years ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆148Jan 9, 2026Updated 2 months ago
- ☆81Mar 13, 2026Updated last week
- Processing support for Greengenes2☆14Jul 31, 2023Updated 2 years ago
- Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.☆170Jan 2, 2026Updated 2 months ago
- Calculate assocations between genes and traits☆29Mar 10, 2025Updated last year
- PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes☆25Dec 4, 2023Updated 2 years ago
- GenoVi, an automated customizable circular genome visualizer for bacteria and archaea☆103Jun 25, 2023Updated 2 years ago