qiime
There are 26 repositories under qiime topic.
biocore/empress
A fast and scalable phylogenetic tree viewer for microbiome data analysis
biocore/redbiom
Sample search by metadata and features
biocore/qurro
Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples
Joseph7e/Assign-Taxonomy-with-BLAST
Assign taxonomy with blast, can be used for qiime
smdabdoub/phylotoast
Tools for phylogenetic data analysis including visualization and cluster-computing support.
ElDeveloper/dogs
Companion notebooks for "Dog and human inflammatory bowel disease rely on overlapping yet distinct dysbiosis networks"
Xcelris-Labs-Ltd/Publication-ready-taxonomic-charts-from-QIIME
Ultra fast program to generate publication ready taxonomic pie charts from QIIME.
attayeb/auto-q
Auto-q Qiime Analysis Automating Script
hohonuuli/qiime1
Docker container for running qiime
ResearchIT/qiime2
Singularity Recipe for QIIME 2
tianrenmao/16S-18S-ITS-ASAP
This is an automatic pipeline for analysis of amplicon sequence data including 16S, 18S and ITS. It wraps QIIME commands and complements them with additional analysis where QIIME is not good at, such as combine multiple sequencing runs, OTU clustering and chimeric removal with UP ARSE, alignment filtering with Gblock, removing Chloroplast sequences.
digsci/biolab
Bioinformatics pipeline for analysis of diatom sequenced data
ElDeveloper/phd-thesis
Doctoral dissertation
nishattasnim11/16S_soilgut
MSc - 16S sequence datasets, amplicon analysis, and stats
astrdhr/metagenomics-soil
BSc project: metagenomic analysis of urban park soil. Breakdown of some of the code I used can be viewed on this website:
biocore/q2-ili
QIIME2 plugin for `ili
sghignone/R.Qiime_MaarjAM
A semi-automated protocol to get Qiime-formatted MaarjAM database of Arbuscular Mycorrhizal Fungi
andrew10043/qiimeTutorials
Tutorials on microbiome analysis using the Quantitative Insights Into Microbial Ecology (QIIME) platform
jessyboricua/ancient-caribbean-microbiomes
Analysis of DNA sequencing data obtained from ancient feces of Huecoids and Saladoids, two cultures that lived in the Caribbean before the arrival of Europeans to the region.
akshayparopkari/phylotoast
Tools for phylogenetic data analysis including visualization and cluster-computing support.
Franky1/microbiome
Streamlit app forked for debugging purposes
glickmac/Microbiome_Demo
A repository containing a demo microbiome workflow for R and Python
olabiyi/qiime1-scripts
Bash scripts for running QIIME 1.9 and a Snakemake workflow to automate it using singularity container images.
segrelab/MiCoNE-pipeline-paper
The source code for the MIND pipeline paper