paprica - PAthway PRediction by phylogenetIC plAcement
☆33Jun 2, 2026Updated 5 months ago
Alternatives and similar repositories for paprica
Users that are interested in paprica are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆24May 6, 2020Updated 6 years ago
- Tool for constructing phylogenies and summarizing metabolic characteristics based on curated and custom profile HMMs☆19Feb 5, 2022Updated 4 years ago
- This repository releases the model weights of ANNA16, an end-to-end tool that predicts 16S rRNA gene copy number (GCN) from 16S rRNA sequ…☆12Updated this week
- User-friendly tool to quickly go from 16S rRNA sequence data to an OTU matrix☆10Apr 16, 2014Updated 12 years ago
- Find Co-Abundant Groups of Genes☆12Aug 3, 2020Updated 6 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.
- ☆44Nov 20, 2017Updated 8 years ago
- MiGA: Microbial Genomes Atlas☆33Aug 7, 2026Updated 2 months ago
- Pipeline for metagenome and metatranscriptome joint assembly☆21Mar 3, 2023Updated 3 years ago
- General procedure for making QIIME 2 compatible SILVA reference files☆20Oct 3, 2024Updated 2 years ago
- mergem is a python package and command-line tool for merging, comparing, and translating genome-scale metabolic models☆15Aug 20, 2025Updated last year
- MinPath (Minimal set of Pathways) is a parsimony approach for biological pathway reconstructions using protein family predictions, achiev…☆25Jun 9, 2021Updated 5 years ago
- KEGG Module Evaluation Tool☆33Mar 5, 2026Updated 7 months ago
- Code, unit tests, and tutorials for running PICRUSt2☆399Oct 24, 2026Updated last week
- Metagenomic profiling and phylogenetic distances via common kmers☆41Jul 12, 2021Updated 5 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.
- EMIRGE reconstructs full length ribosomal genes from short read sequencing data.☆38Sep 15, 2023Updated 3 years ago
- ☆15Dec 26, 2022Updated 3 years ago
- Collection of commonly used RDP Tools for easy building☆53Jun 8, 2023Updated 3 years ago
- Calculation of the Percentage of Conserved Proteins following Qin, Xie et al. 2014 but using DIAMOND instead of BLASTP for alignments.☆29Aug 3, 2026Updated 3 months ago
- Comparing and combining multiple metagenomic datasets☆16Oct 12, 2022Updated 4 years ago
- Scripts for calculating features and regression of prokaryote OGT☆27Feb 13, 2024Updated 2 years ago
- Pipeline for Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data☆19Oct 7, 2026Updated 3 weeks ago
- qiime2 plugin for aldex2 for differential abundance analysis☆11Mar 5, 2020Updated 6 years ago
- t-distributed stochastic neighbor embedding for microbiota data☆13May 12, 2019Updated 7 years ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- ☆23May 16, 2020Updated 6 years ago
- diversity estimation under ecological networks☆83Jun 16, 2026Updated 4 months ago
- Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t☆12Feb 23, 2025Updated last year
- Snakemake Assembly pipeline☆11Jul 15, 2026Updated 3 months ago
- Ensemble of HMM methods (SEPP, TIPP, UPP)☆96Aug 11, 2025Updated last year
- ☆16Sep 28, 2026Updated last month
- Library for analyzing and manipulating phylogenetic trees☆16Updated this week
- Computation of Unifrac using Earth Movers Distance☆10Jun 20, 2022Updated 4 years ago
- Repo for Proksee Cmd Line Tools☆30Feb 22, 2023Updated 3 years 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.
- Python package for common tasks in bioinformatic.☆11Sep 24, 2025Updated last year
- Inference of microbial interaction networks from large-scale heterogeneous abundance data☆97Oct 9, 2025Updated last year
- Python package to study microbial communities using metabolic modeling.☆140Updated this week
- R package for computing alpha and beta contributional diversity metrics☆11May 5, 2023Updated 3 years ago
- MetaPathways v2.0: A master-worker model for environmental Pathway/Genome Database construction on grids and clouds☆33Nov 26, 2015Updated 10 years ago
- Accurate quality filtering of metagenomic amplicon sequences☆12Aug 26, 2019Updated 7 years ago
- MaAsLin3: Microbiome Multivariate Association with Linear Models☆89Oct 19, 2026Updated 2 weeks ago