microUCPH / amplicon_data_analysis
Collection of notebooks describing the basic analysis workflow for a 16S rRNA gene amplicon sequencing project
☆11Updated 2 years ago
Alternatives and similar repositories for amplicon_data_analysis:
Users that are interested in amplicon_data_analysis are comparing it to the libraries listed below
- ☆50Updated last year
- Metagenomics-related extended functionalities to samtools☆21Updated last year
- Growth Rate Index (GRiD) measures bacterial growth rate from reference genomes (including draft quality genomes) and metagenomic bins at …☆32Updated 4 years ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆33Updated 4 years ago
- Pipeline for Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data☆14Updated last month
- A pipeline for for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets☆26Updated 3 months ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- ☆12Updated 3 years ago
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆24Updated 3 weeks ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆45Updated 5 years ago
- This is a comprehensive database for fast and accurately analyzing the phosphorus cycling genes.☆31Updated 2 years ago
- Dissimilarity Overlap Curve analysis☆11Updated 2 years ago
- Improvement of metagenome-assembled genomes☆51Updated 5 years ago
- General procedure for making QIIME 2 compatible SILVA reference files☆20Updated 6 months ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆53Updated 3 months ago
- ☆48Updated 4 years ago
- Compare different differential abundance and expression methods☆51Updated 3 years ago
- AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resis…☆35Updated last month
- A machine learning-based tool for predicting metabolic modules in incomplete bacterial genomes.☆17Updated 5 months ago
- BEAV: Bacterial Element Annotation reVamped☆64Updated 5 months ago
- This is a collection of scripts for analyzing mixed 16S/18S amplicon sequences using tools such as qiime2, DADA2, deblur, and bbtools☆31Updated 2 months ago
- ☆16Updated 5 months ago
- Data, scripts, and lectures for the Introduction to Metagenomics Summer Workshop 2019.☆33Updated 5 years ago
- ☆52Updated last year
- HoCoRT - Remove specific organisms from sequencing reads☆17Updated 3 months ago
- ☆54Updated 3 weeks ago
- A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations☆40Updated 2 years ago
- ☆17Updated 2 years ago
- ☆41Updated 4 years ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆57Updated 7 months ago