R markdown documents copied from other folders on Dec 15th 2021
☆14Nov 4, 2025Updated 11 months ago
Alternatives and similar repositories for kraken_metaphlan_comparison
Users that are interested in kraken_metaphlan_comparison are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- vaginal microbiota☆13Jan 21, 2025Updated last year
- MicrobeRX☆17Aug 11, 2025Updated last year
- ☆20Mar 29, 2022Updated 4 years ago
- Order and orientation of complete bacterial genomes☆29Jun 30, 2026Updated 3 months ago
- Create your own PanViz visualizations☆21Nov 20, 2017Updated 8 years ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- Materials for the STAMPS 2024 course at the MBL in Woods Hole, MA, USA☆13Jul 25, 2024Updated 2 years ago
- ☆11Mar 11, 2025Updated last year
- A method for reconstruction of subspecies composition and functional profiles from metagenomic data☆13May 27, 2024Updated 2 years ago
- Trans-Kingdom Marker Gene Pipeline for Taxonomic Profiling of Human Metagenomes☆23Nov 24, 2025Updated 10 months ago
- Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.☆155Sep 29, 2026Updated 2 weeks ago
- MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data☆18Jul 15, 2025Updated last year
- R package for fetching and parsing data of the Human Microbiome Compendium☆17May 6, 2026Updated 5 months ago
- Convert GTDB taxonomy to NCBI taxdump format☆78Aug 24, 2023Updated 3 years ago
- a user-friendly and flexible pipeline for prokaryote genome analysis☆69Sep 29, 2026Updated 2 weeks ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Uses cDBG to count unitigs in bacterial populations☆20Feb 15, 2023Updated 3 years ago
- Host depletion optimised for clinical metagenomic sequencing applications☆19Jul 9, 2026Updated 3 months ago
- strain-level analysis tools☆40Oct 21, 2024Updated last year
- Re-analysis of data provided by Gihawi et al. 2023 bioRxiv☆27Aug 8, 2023Updated 3 years ago
- This is the source code for ARGs-OAP v2.0 construction☆13Aug 1, 2019Updated 7 years ago
- Chang and Gupta et al., Gut Microbiome Wellness Index 2 Enhances Health Status Prediction from Gut Microbiome Taxonomic Profiles, Nature …☆27Jan 20, 2025Updated last year
- 🦠 A tool for identifying and analyzing functions in microbial genomes.☆16Sep 25, 2024Updated 2 years ago
- ☆12Mar 10, 2024Updated 2 years ago
- the Metagenomic test for Presence Or Absence of Pathways☆13Mar 4, 2019Updated 7 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.
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆67Jun 16, 2025Updated last year
- This is the supplementary code for CRC-multi-kingdom☆17Nov 8, 2021Updated 4 years ago
- Hands-on workflow for learning metagenomics including DNA mapping, binning, QC and annotation. Answers and example code available in the…☆16Mar 25, 2022Updated 4 years ago
- MaAsLin3: Microbiome Multivariate Association with Linear Models☆87Sep 15, 2026Updated last month
- taxonomic classifier based on the kraken2 algorithms and more☆46Dec 12, 2025Updated 10 months ago
- ☆26Feb 7, 2022Updated 4 years ago
- Calculate confidence scores from Kraken2 output☆25Feb 18, 2024Updated 2 years ago
- A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences☆66Oct 7, 2026Updated last week
- A metagenomic strategy for harnessing the chemical repertoire of the human microbiome☆33Jun 13, 2026Updated 4 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- alignment-free coverage calculation for metagenomic binning >100 times faster☆58May 8, 2026Updated 5 months ago
- Support scripts for the visualisation of pangenome analyses in Graphia☆21Oct 7, 2024Updated 2 years ago
- sunburst plots for taxonomy - working to update Krona☆48Sep 22, 2025Updated last year
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆382Aug 1, 2025Updated last year
- MicrobiomeReview☆11Jun 6, 2023Updated 3 years ago
- Download assembly files from NCBI☆12May 9, 2023Updated 3 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆65Apr 18, 2026Updated 5 months ago