A Python package for gene-centric taxonomic and functional classification using phylogenetic placement
☆26Sep 3, 2024Updated last year
Alternatives and similar repositories for TreeSAPP
Users that are interested in TreeSAPP are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Easy-to-use web application for visualization and comparison of genomes in Genbank file☆22May 27, 2022Updated 3 years ago
- Protocols, data and code associated with the MK-SpikeSeq method for quantifying the absolute abundances of microbiota samples☆12May 19, 2021Updated 4 years ago
- Python package for common tasks in bioinformatic.☆12Sep 24, 2025Updated 7 months ago
- frame-shift correction for long-read (meta)genomics☆33Dec 11, 2023Updated 2 years ago
- StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…☆13Mar 7, 2024Updated 2 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- 🦠🧬🧑💻📇 Microbial genomes-to-report pipeline☆75Mar 14, 2026Updated last month
- GraftM - Rapid community profiles from metagenomes☆51Nov 6, 2025Updated 5 months ago
- ☆51Mar 29, 2026Updated last month
- Repository of the integrated mouse gut metagenomic catalog☆20Mar 14, 2022Updated 4 years ago
- Plot genome alignment figure using progressiveMauve & genoPlotR☆22Aug 5, 2022Updated 3 years ago
- Plot multiple sequence alignment (MSA)☆17Apr 21, 2026Updated last week
- Graph Splitting Method☆13Jul 10, 2019Updated 6 years ago
- highthroughput rRNA sequence classification and OTU mapping for metagenomic samples☆27Nov 3, 2023Updated 2 years ago
- Utility functions for weights and biases (wandb).☆11Sep 17, 2024Updated last year
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆17Feb 5, 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
- 🧬 MSABrowser: dynamic and fast visualization of sequence alignments, variations, and annotations☆38May 21, 2024Updated last year
- hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance☆22Mar 8, 2024Updated 2 years ago
- ViromeScan allows the user to explore and taxonomically characterize the virome from metagenomic reads, efficiently denoising samples fro…☆13Feb 13, 2023Updated 3 years ago
- MetaCarvel: A scaffolder for metagenomes☆14Apr 13, 2026Updated 2 weeks ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆25Apr 10, 2026Updated 2 weeks ago
- A whole-genome and alignment-free prokaryotic phylogeny tool☆23Mar 9, 2025Updated last year
- Assort phage protein sequences into phamilies using MMseqs2☆12Dec 16, 2024Updated last year
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- An ATAC-seq pipeline wrapped in NextFlow that can be run by Jupyter☆14Jan 18, 2019Updated 7 years ago
- 🦠🧬 Unraveling Viral Genomes from Metagenomes☆10Oct 3, 2025Updated 6 months ago
- Gigabase: Synthetic Biology Cell Modeling Project☆19Nov 3, 2013Updated 12 years ago
- [Archived] SnakeMake pipeline to run BlobTools on public assemblies☆11Jul 3, 2023Updated 2 years ago
- UFCG: Universal Fungal Core Genes☆36Jul 29, 2025Updated 9 months ago
- CLI to automate Nextflow pipeline testing☆12Dec 15, 2025Updated 4 months ago
- From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)☆21Jul 8, 2024Updated last year
- Finding prophage regions in bacterial genomes using brute force☆22Jan 20, 2023Updated 3 years ago
- Close assembly gaps using long-reads at high accuracy.☆51Feb 20, 2024Updated 2 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆84May 3, 2025Updated 11 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Apr 23, 2026Updated last week
- Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation☆31May 25, 2021Updated 4 years ago
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.☆106Jan 22, 2026Updated 3 months ago
- Inference of putative transmission phylogenetic clusters☆12Oct 13, 2020Updated 5 years ago
- finding conserved regions in highly diverse genomes☆16Updated this week
- 🧬 Efficient parallelized peta-scale protein database search