A fast and scalable phylogenetic tree viewer for microbiome data analysis
☆55Aug 4, 2024Updated last year
Alternatives and similar repositories for empress
Users that are interested in empress are comparing it to the libraries listed below
Sorting:
- Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples☆34Apr 4, 2025Updated 11 months ago
- Woltka: a versatile meta'omic data classifier☆77Sep 8, 2025Updated 5 months ago
- qiime2 plugin for aldex2 for differential abundance analysis☆11Mar 5, 2020Updated 5 years ago
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- ☆16Apr 10, 2023Updated 2 years ago
- Sample search by metadata and features☆47Aug 31, 2023Updated 2 years ago
- ☆41Oct 10, 2025Updated 4 months ago
- Bayesian Inferential Regression for Differential Microbiome Analysis☆24Dec 19, 2023Updated 2 years ago
- ☆16May 22, 2023Updated 2 years ago
- Spaghetti: in situ analysis of 16S rRNA amplicons obtained by nanopore sequencing☆19Jul 26, 2024Updated last year
- Repository of the integrated mouse gut metagenomic catalog☆20Mar 14, 2022Updated 3 years ago
- TAXnomic Profile Aggregation and STAndardisation☆42Nov 18, 2025Updated 3 months ago
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆20Nov 12, 2025Updated 3 months ago
- Vanilla regression methods for microbiome differential abundance analysis☆61Nov 3, 2020Updated 5 years ago
- annotation pipeline for microbial genomes and metagenomes☆18Feb 23, 2018Updated 8 years ago
- Generate Galaxy tool descriptions automatically from QIIME 2 actions.☆20Jan 27, 2026Updated last month
- A Python package for microbiome sequencing analysis with QIIME 2☆47Jan 28, 2024Updated 2 years ago
- Case-control matching for microbiome data☆10Aug 8, 2023Updated 2 years ago
- Robust Aitchison PCA from sparse count data☆37Aug 17, 2022Updated 3 years ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆63Nov 20, 2025Updated 3 months ago
- Functions for reproducibly Obtaining and Normalizing Data re-Used from Elsewhere☆25Feb 20, 2026Updated last week
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 5 years ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆17Nov 24, 2025Updated 3 months ago
- Real-time species-typing visualisation for nanopore data.☆13Apr 11, 2023Updated 2 years ago
- Analyze a set of genomes with the anvi'o pangenome pipeline☆16Oct 11, 2023Updated 2 years ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Jan 29, 2023Updated 3 years ago
- ☆21Apr 25, 2025Updated 10 months ago
- ☆42Feb 14, 2021Updated 5 years ago
- GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click…☆86Dec 15, 2024Updated last year
- Download assembly files from NCBI☆13May 9, 2023Updated 2 years ago
- Hardware Accelerated Read Until☆17Sep 30, 2025Updated 5 months ago
- A QIIME 2 implementation of SMURF☆13Apr 27, 2022Updated 3 years ago
- Pipeline to run qiime2 with snakemake☆18Apr 17, 2020Updated 5 years ago
- Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing☆125May 12, 2024Updated last year
- Shared k-mer content between two genomes☆19Jun 21, 2023Updated 2 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics☆199Updated this week
- REference Sequence annotation and CuRatIon Pipeline☆99Feb 19, 2026Updated last week
- Emperor a tool for the analysis and visualization of large microbial ecology datasets☆54Jan 12, 2026Updated last month