Franky1/microbiome

Streamlit app forked for debugging purposes

Language: Python - Size: 2.77 MB - Last synced: 28 days ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

biocore/empress

A fast and scalable phylogenetic tree viewer for microbiome data analysis

Language: JavaScript - Size: 45.8 MB - Last synced: 2 days ago - Pushed: almost 2 years ago - Stars: 45 - Forks: 31

segrelab/MiCoNE-pipeline-paper

The source code for the MIND pipeline paper

Language: HTML - Size: 61.2 MB - Last synced: about 2 months ago - Pushed: 9 months ago - Stars: 0 - Forks: 0

biocore/redbiom

Sample search by metadata and features

Language: Python - Size: 2.3 MB - Last synced: about 9 hours ago - Pushed: 9 months ago - Stars: 43 - Forks: 20

biocore/qurro

Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples

Language: JavaScript - Size: 79.9 MB - Last synced: about 2 months ago - Pushed: over 1 year ago - Stars: 30 - Forks: 9

Joseph7e/Assign-Taxonomy-with-BLAST

Assign taxonomy with blast, can be used for qiime

Language: Python - Size: 63.5 KB - Last synced: 7 months ago - Pushed: 9 months ago - Stars: 15 - Forks: 6

hohonuuli/qiime1

Docker container for running qiime

Size: 6.84 KB - Last synced: 7 months ago - Pushed: about 3 years ago - Stars: 3 - Forks: 0

glickmac/OTU_Groupings

Language: Shell - Size: 32.2 KB - Last synced: 7 months ago - Pushed: over 6 years ago - Stars: 0 - Forks: 0

ElDeveloper/dogs

Companion notebooks for "Dog and human inflammatory bowel disease rely on overlapping yet distinct dysbiosis networks"

Language: Jupyter Notebook - Size: 55.2 MB - Last synced: 7 months ago - Pushed: almost 6 years ago - Stars: 10 - Forks: 4

ElDeveloper/phd-thesis

Doctoral dissertation

Language: TeX - Size: 48.5 MB - Last synced: 7 months ago - Pushed: over 6 years ago - Stars: 2 - Forks: 4

attayeb/auto-q

Auto-q Qiime Analysis Automating Script

Language: Python - Size: 75.2 KB - Last synced: 7 months ago - Pushed: about 2 years ago - Stars: 3 - Forks: 1

Xcelris-Labs-Ltd/Publication-ready-taxonomic-charts-from-QIIME

Ultra fast program to generate publication ready taxonomic pie charts from QIIME.

Language: Python - Size: 21.6 MB - Last synced: 7 months ago - Pushed: about 5 years ago - Stars: 5 - Forks: 3

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.

Language: Perl - Size: 23.8 MB - Last synced: 7 months ago - Pushed: almost 6 years ago - Stars: 2 - Forks: 0

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.

Size: 5.86 KB - Last synced: 4 months ago - Pushed: 7 months ago - Stars: 0 - Forks: 0

sghignone/R.Qiime_MaarjAM

A semi-automated protocol to get Qiime-formatted MaarjAM database of Arbuscular Mycorrhizal Fungi

Language: R - Size: 5.09 MB - Last synced: about 1 month ago - Pushed: about 7 years ago - Stars: 1 - Forks: 1

nishattasnim11/16S_soilgut

MSc - 16S sequence datasets, amplicon analysis, and stats

Language: R - Size: 443 KB - Last synced: 8 months ago - Pushed: about 5 years ago - Stars: 2 - Forks: 0

smdabdoub/phylotoast

Tools for phylogenetic data analysis including visualization and cluster-computing support.

Language: Python - Size: 79.7 MB - Last synced: 13 days ago - Pushed: over 2 years ago - Stars: 12 - Forks: 4

ResearchIT/qiime2

Singularity Recipe for QIIME 2

Language: Roff - Size: 5.86 KB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 2 - Forks: 4

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:

Language: Shell - Size: 37 MB - Last synced: 11 months ago - Pushed: over 3 years ago - Stars: 1 - Forks: 0

biocore/q2-ili

QIIME2 plugin for `ili

Language: Python - Size: 4.21 MB - Last synced: about 1 year ago - Pushed: over 5 years ago - Stars: 1 - Forks: 2

joowkim/16s-data-analysis-using-Qiime1

Language: Jupyter Notebook - Size: 475 KB - Last synced: about 1 year ago - Pushed: over 5 years ago - Stars: 1 - Forks: 0

akshayparopkari/phylotoast Fork of smdabdoub/phylotoast

Tools for phylogenetic data analysis including visualization and cluster-computing support.

Language: Python - Size: 79.7 MB - Last synced: about 1 year ago - Pushed: almost 6 years ago - Stars: 0 - Forks: 0

glickmac/Microbiome_Demo

A repository containing a demo microbiome workflow for R and Python

Language: Jupyter Notebook - Size: 127 MB - Last synced: about 1 year ago - Pushed: about 6 years ago - Stars: 0 - Forks: 0

andrew10043/qiimeTutorials

Tutorials on microbiome analysis using the Quantitative Insights Into Microbial Ecology (QIIME) platform

Language: Shell - Size: 15.6 KB - Last synced: 7 months ago - Pushed: almost 7 years ago - Stars: 0 - Forks: 0