A Hierarchical Approach to Pangenomics Inference
☆13Apr 15, 2024Updated 2 years ago
Alternatives and similar repositories for happi
Users that are interested in happi are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Computation of average nucleotide identity with the use of MMseqs2☆22Dec 11, 2024Updated last year
- Hydrocarbon biodegradation gene annotation☆19Jul 14, 2022Updated 3 years ago
- MetagenOmic read Re-Assigner and abundance quantifier☆20Jan 31, 2025Updated last year
- 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☆63Feb 11, 2026Updated 2 months ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ☆10Mar 29, 2025Updated last year
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Apr 1, 2023Updated 3 years ago
- Snakemake workflow to map and quantify microbial genomes in metagenomic reads☆14Oct 10, 2025Updated 6 months ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆55Sep 7, 2025Updated 7 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆60Nov 3, 2023Updated 2 years ago
- Find Prokaryotic DNA methylase genes in proteins, contigs, or genomes☆11Jan 23, 2026Updated 3 months ago
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆43Sep 3, 2024Updated last year
- Various scripts used at the EnvGen group, directed towards metagenomic analysis.☆15Apr 28, 2020Updated 6 years ago
- Scalable creating/updating of metagenome profiling databases☆62Jun 25, 2025Updated 10 months 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.
- Prediction of microbial interactions in complex communities☆11Aug 14, 2024Updated last year
- Pipeline for identification of eukaryotic contigs in metagenomic assemblies☆13Mar 14, 2024Updated 2 years ago
- Materials for the STAMPS 2022 course at the MBL in Woods Hole, MA, USA☆22Aug 2, 2022Updated 3 years ago
- ☆13Aug 13, 2024Updated last year
- Protocol for finding informative protein families and then using them to score omic samples☆19Jul 27, 2022Updated 3 years ago
- A platform for targeted annotation of (meta)genomic and (meta)transcriptomic datasets using HMM sets.☆14Apr 4, 2026Updated 3 weeks ago
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆89Dec 27, 2024Updated last year
- Bin Chicken - recovery of low abundance and taxonomically targeted metagenome assembled genomes (MAGs) through strategic coassembly☆75Mar 3, 2026Updated last month
- ☆11Jul 3, 2022Updated 3 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.
- R tools for reconstructing metabolisms.☆14Mar 10, 2026Updated last month
- A microbiome analysis toolkit for R☆26Aug 21, 2023Updated 2 years ago
- Find similar photos with Python 🐍☆17Feb 1, 2023Updated 3 years ago
- lsaBGC - suite for pan-BGC-omics analysis☆23Nov 21, 2025Updated 5 months ago
- Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes☆22Dec 9, 2025Updated 4 months ago
- MDMcleaner the assessment, classification and refinement tool for microbial dark matter SAGs and MAGs☆25Mar 19, 2023Updated 3 years ago
- A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…☆82Sep 8, 2025Updated 7 months ago
- A machine learning-based tool for predicting metabolic modules in incomplete bacterial genomes.☆23Aug 14, 2025Updated 8 months ago
- ☆58Apr 8, 2026Updated 3 weeks ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆49Mar 13, 2024Updated 2 years ago
- MetaWIBELE: Workflow to Identify novel Bioactive Elements in microbiome☆23Nov 25, 2025Updated 5 months ago
- Binning Virus Genomes from Metagenomes☆73Jul 13, 2022Updated 3 years ago
- DiTing: A pipeline to infer and compare biogeochemical pathways in metagenomic data☆51Mar 12, 2026Updated last month
- Integrative virome pipeline☆13Nov 4, 2024Updated last year
- ☆21Mar 15, 2023Updated 3 years ago
- ARG normalization by mapping to the ARO ontology.☆64Jul 30, 2025Updated 9 months ago