☆92May 22, 2024Updated 2 years ago
Alternatives and similar repositories for lefse
Users that are interested in lefse are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).☆253Sep 24, 2026Updated 2 weeks ago
- bioBakery tools for meta'omic profiling☆323Aug 4, 2026Updated 2 months ago
- ISCompare, an opensource program to identify Differentially Located Insertion Sequences☆14Apr 30, 2026Updated 5 months ago
- MaAsLin2: Microbiome Multivariate Association with Linear Models☆153Feb 5, 2026Updated 8 months ago
- R implementation of the LEfSe method☆68May 14, 2026Updated 4 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Conversion software tool for producing both annotation and tree files for GraPhlAn☆11Feb 2, 2022Updated 4 years ago
- Code, unit tests, and tutorials for running PICRUSt2☆396Sep 25, 2026Updated 2 weeks ago
- Ying's tools for analysis, with particular focus on microbiome data☆40Jul 6, 2026Updated 3 months ago
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆170Jun 10, 2026Updated 4 months ago
- A Linear Discriminant Analysis Effect Size (LEfSe) wrapper.☆26Feb 2, 2017Updated 9 years ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆383Aug 1, 2025Updated last year
- 16S rRNA marker gene upstream and dowstream analysis tutorial for the UCT Hex cluster.☆12Jan 15, 2021Updated 5 years ago
- Hybrid Assembler for Plasmids☆10Jul 28, 2022Updated 4 years ago
- A Python package for microbiome sequencing analysis with QIIME 2☆46Jan 28, 2024Updated 2 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.
- CLI tool to annotate genes with KOfam☆108Jun 6, 2023Updated 3 years ago
- R package for microbiome biomarker discovery☆199Feb 19, 2025Updated last year
- Differential abundance (DA) and correlation analyses for microbial absolute abundance data☆144Sep 18, 2026Updated 3 weeks ago
- MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data☆425Sep 10, 2026Updated 3 weeks ago
- Microbial ecological network visualization clustering☆155Sep 29, 2026Updated last week
- some useful scripts for working with genomics and sequencing data☆18Oct 31, 2019Updated 6 years ago
- A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations☆44Apr 4, 2023Updated 3 years ago
- Ontology-aware neural network (ONN) for microbial community sample source tracking!☆10Oct 11, 2022Updated 3 years ago
- This is the supplementary code for CRC-multi-kingdom☆17Nov 8, 2021Updated 4 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Visualize microbiome data with black magic ggtree☆67Sep 3, 2020Updated 6 years ago
- Metagenome analysis pipeline☆102Jul 26, 2021Updated 5 years ago
- Download assembly files from NCBI☆12May 9, 2023Updated 3 years ago
- A QIIME 2 implementation of SMURF☆13Apr 27, 2022Updated 4 years ago
- KEGG Module Evaluation Tool☆33Mar 5, 2026Updated 7 months ago
- An R interface to the omixer-rpm for turning metagenomic functional profiles into pathway/module profiles☆12Dec 16, 2022Updated 3 years ago
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆623Updated this week
- A healthy human gut genome collection☆26Aug 21, 2025Updated last year
- A simple script to run an alignment with nucmer and visualise its results.☆10Apr 17, 2023Updated 3 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.
- A companion R package for the MicrobiomeAnalyst web server☆132Sep 29, 2026Updated last week
- bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validate…☆139Aug 6, 2026Updated 2 months ago
- Profiler for metagenomics based on NGLess☆14Feb 22, 2024Updated 2 years ago
- Easy Amplicon data analysis pipeline☆375Apr 20, 2026Updated 5 months ago
- High-quality circular representations of taxonomic and phylogenetic trees☆112Aug 7, 2024Updated 2 years ago
- Collection of commonly used RDP Tools for easy building☆53Jun 8, 2023Updated 3 years ago
- Rice (Oryza Sative) root microbiome time-course analysis. (Zhang2018SCLS)☆31Mar 29, 2019Updated 7 years ago