Sydney-Informatics-Hub / Shotgun-Metagenomics-AnalysisLinks
Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more
☆32Updated 2 years ago
Alternatives and similar repositories for Shotgun-Metagenomics-Analysis
Users that are interested in Shotgun-Metagenomics-Analysis are comparing it to the libraries listed below
Sorting:
- Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing☆119Updated last year
- Course material for the metagenomics course☆44Updated 3 years ago
- Metatranscriptomics Tutorial☆63Updated 2 years ago
- Bioinformatics Tools☆87Updated 2 weeks ago
- Snakemake workflow for metagenomic classification with Kraken2☆65Updated 2 years ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆75Updated 2 years ago
- Accurate and rapid RiboRNA sequences Detector based on deep learning☆112Updated last year
- Nextflow pipeline to analyze PacBio HiFi full-length 16S data☆79Updated last week
- ☆56Updated last year
- Statistical analysis for sparse high-throughput sequencing☆69Updated 6 months ago
- bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validate…☆117Updated last month
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆56Updated last year
- MaAsLin2: Microbiome Multivariate Association with Linear Models☆144Updated 8 months ago
- Rapid and scalable correlation estimation for compositional data☆90Updated last year
- Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data☆160Updated 2 years ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆56Updated 3 years ago
- Recovery of prokaryotic genomes from shotgun metagenomic sequencing data☆60Updated 4 years ago
- This repository gives an overview of my teaching activities. Links to slides and data sets are included. Feel free to re-use my content.☆51Updated 2 months ago
- Materials and presentation for the 2023 ISB Microbiome course.☆24Updated 9 months ago
- gutSMASH☆55Updated 6 months ago
- motus - a tool for marker gene-based OTU (mOTU) profiling☆155Updated last year
- Metagenomics Workshop☆28Updated 8 years ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆122Updated last year
- Making whole bacterial genome sequencing data analysis easy☆108Updated 2 months ago
- Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.☆123Updated 3 weeks ago
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆103Updated 5 months ago
- An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters☆89Updated last year
- ☆86Updated last year
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data☆155Updated last week
- Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat☆42Updated 2 weeks ago