topological data analysis of population-scale microbiomes
☆32Jan 27, 2023Updated 3 years ago
Alternatives and similar repositories for tmap
Users that are interested in tmap are comparing it to the libraries listed below
Sorting:
- Calculate the normalizing factors for zeroinflated sequencing data such as microbiome sequencing data☆16Jan 31, 2025Updated last year
- Python functions to compute multiparameter persistence landscapes from a RIVET file☆14Jul 13, 2024Updated last year
- A collection of topological data analysis links, frameworks, libraries and software. Inspired by awesome projects line.☆19Aug 7, 2024Updated last year
- an R package to biotype a community☆14Oct 19, 2021Updated 4 years ago
- Microbiome Analysis Plotting and Visualization☆12Mar 10, 2026Updated last week
- Miscellaneous scripts☆24Sep 7, 2016Updated 9 years ago
- Topological Data Analysis Routines☆150Updated this week
- A public resource for microbiome bioinformatics benchmarking using artificially constructed (i.e., mock) communities.☆83May 14, 2019Updated 6 years ago
- repo for cicese metatranscriptomics workshop, nov 2018☆14Jan 22, 2020Updated 6 years ago
- This repository is for topologic and geometric data analysis.☆13Jul 2, 2022Updated 3 years ago
- Advanced metagenomic Sequence Analysis in R☆15Aug 17, 2018Updated 7 years ago
- METAgenomic LONgitudinal Differential Abundance method☆16Dec 17, 2019Updated 6 years ago
- The is mostly a wrapper tool using phyloseq and microbiome R packages.☆32Nov 23, 2022Updated 3 years ago
- Microbiome analysis☆54Updated this week
- A graph visualisation tool targeted at persistent homology applications.☆11Jul 28, 2020Updated 5 years ago
- tidyMicro GitHup Repository☆21Nov 17, 2021Updated 4 years ago
- A model-based visualization method for microbiome data☆16Oct 27, 2025Updated 4 months ago
- A collection of utilities for working with next generation (MPS) sequencing data in Groovy☆15Mar 2, 2026Updated 2 weeks ago
- raw data from tax-credit project☆14Sep 19, 2019Updated 6 years ago
- DeepMicrobes: taxonomic classification for metagenomics with deep learning☆104Sep 17, 2022Updated 3 years ago
- A tool for agile functional analysis of shotgun metagenomic data☆24Sep 15, 2024Updated last year
- Detecting critical transitions in financial networks with topological data analysis.☆16Mar 12, 2019Updated 7 years ago
- Software demonstrations for a course on Topological Data Analysis.☆12Mar 26, 2021Updated 4 years ago
- Climate change is a controversial topic of debate, where many of us do not believe in anthropogenic climate change. Because its consequen…☆11Sep 20, 2022Updated 3 years ago
- Clinical Variant Annotation Pipeline☆10Apr 21, 2020Updated 5 years ago
- Topological Data Analysis for Power System Contingencies☆10Sep 17, 2020Updated 5 years ago
- Visualize microbiome data with black magic ggtree☆68Sep 3, 2020Updated 5 years ago
- an R package collection for topological data analysis☆15Feb 25, 2026Updated 3 weeks ago
- Distributed dynamic process model (DDPM) is a bidirectional coupling eco-hydrological model for (but not limited to) steppe inland river …☆10Jul 9, 2025Updated 8 months ago
- Git mirror of Bioconductor SRAdb package☆23Feb 20, 2018Updated 8 years ago
- MIMIX: a Bayesian Mixed-Effects Model for Microbiome Data from Designed Experiments☆11Jul 9, 2020Updated 5 years ago
- Topological Data Analysis of a Financial Time Series for insights from Landscapes for detecting Financial Crashes☆12Mar 14, 2018Updated 8 years ago
- Qiita - A multi-omics databasing effort☆128Feb 16, 2026Updated last month
- A repository for storing code and data related to a systematic comparison of short read taxonomy assignment tools☆16Oct 11, 2017Updated 8 years ago
- Genetic correlation calculation pipeline via summary statistics for PheWeb☆13Mar 22, 2019Updated 6 years ago
- A single endpoint which generates metadata previews of any given URL.☆15May 16, 2020Updated 5 years ago
- Fast Computation of Zigzag Persistence☆14Dec 9, 2023Updated 2 years ago
- The Microbiome Interpretable Temporal Rule Engine☆46May 26, 2021Updated 4 years ago
- A newly developed metabolic modeling pipeline, SuperCC, which could simulate the performances of different microbiomes.☆26Nov 21, 2025Updated 4 months ago