R markdown documents copied from other folders on Dec 15th 2021
☆14Nov 4, 2025Updated last year
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
- ☆14Dec 19, 2025Updated 10 months ago
- A method for reconstruction of subspecies composition and functional profiles from metagenomic data☆13May 27, 2024Updated 2 years ago
- strain-level analysis tools☆41Oct 21, 2024Updated 2 years ago
- MicrobeRX☆17Aug 11, 2025Updated last year
- 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.
- Order and orientation of complete bacterial genomes☆29Jun 30, 2026Updated 4 months ago
- ☆20Mar 29, 2022Updated 4 years ago
- Calculate confidence scores from Kraken2 output☆25Feb 18, 2024Updated 2 years ago
- Materials for the STAMPS 2024 course at the MBL in Woods Hole, MA, USA☆13Jul 25, 2024Updated 2 years ago
- Convert GTDB taxonomy to NCBI taxdump format☆78Aug 24, 2023Updated 3 years ago
- Create your own PanViz visualizations☆21Nov 20, 2017Updated 8 years ago
- R package for fetching and parsing data of the Human Microbiome Compendium☆17May 6, 2026Updated 6 months ago
- ☆11Mar 11, 2025Updated last year
- MetaSNV, a metagenomic SNV calling pipeline.☆21Mar 25, 2022Updated 4 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.
- Trans-Kingdom Marker Gene Pipeline for Taxonomic Profiling of Human Metagenomes☆23Nov 24, 2025Updated 11 months ago
- MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data☆18Jul 15, 2025Updated last year
- Recording personal workflows used in work, study notes, and summaries of various tools and methods.☆11Oct 9, 2025Updated last year
- A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations☆44Apr 4, 2023Updated 3 years ago
- a user-friendly and flexible pipeline for prokaryote genome analysis☆70Sep 29, 2026Updated last month
- Uses cDBG to count unitigs in bacterial populations☆20Feb 15, 2023Updated 3 years ago
- Scalable creating/updating of metagenome profiling databases☆62Jun 25, 2025Updated last year
- This is the source code for ARGs-OAP v2.0 construction☆13Aug 1, 2019Updated 7 years ago
- Hands-on workflow for learning metagenomics including DNA mapping, binning, QC and annotation. Answers and example code available in the…☆17Mar 25, 2022Updated 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.
- 🦠 A tool for identifying and analyzing functions in microbial genomes.☆17Sep 25, 2024Updated 2 years ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆58May 8, 2026Updated 5 months ago
- Re-analysis of data provided by Gihawi et al. 2023 bioRxiv☆27Aug 8, 2023Updated 3 years ago
- whole genome MLST analysis☆57Jun 17, 2026Updated 4 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆33Oct 5, 2026Updated last month
- BayesCode, a Bayesian framework for phylogenetic comparative methods and phylogenetic codon models☆11Apr 30, 2025Updated last year
- This is the supplementary code for CRC-multi-kingdom☆17Nov 8, 2021Updated 4 years ago
- Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.☆157Updated this week
- MaAsLin3: Microbiome Multivariate Association with Linear Models☆89Oct 19, 2026Updated 2 weeks 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
- Select primer sets for selective whole genome amplification (SWGA)☆32Mar 26, 2019Updated 7 years ago
- Host depletion optimised for clinical metagenomic sequencing applications☆19Jul 9, 2026Updated 3 months ago
- ☆12Mar 10, 2024Updated 2 years ago
- Website / continuous DB builds for SingleM☆12Oct 12, 2026Updated 3 weeks 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
- THRESHER is a framework that replaces fixed cutoffs with data-driven phylothresholds - the SNP thresholds corrected for phylogenetic topo…☆14Oct 17, 2026Updated 2 weeks ago