borenstein-lab

Pinned Repositories

burrito
A visualization tool for exploratory data analysis of metagenomic data
Language:JavaScript35 11 369
CoMiDA
The code and distributable for designing minimal microbial communities with specified metabolic functions.
Language:C++11 5 03
drug_microbiome
Data and code for paper "A data-driven approach for predicting the impact of drugs on the human microbiome"
Language:R8 6 00
fishtaco
FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of microbiome functional shifts
Language:Python23 7 144
MetaLAFFA
A bioinformatics pipeline for annotating functional capacities in shotgun metagenomic data with native compute cluster integration
Language:Python7 5 123
microbiome-metabolome-curated-data
Language:HTML49 3 724
MIMOSA
Model-based Integration of Metabolite Observations and Species Abundances
Language:R23 9 28
mimosa2
Language:R10 5 96
multi_view_integration_analysis
Language:R9 2 00
MUSiCC
MUSiCC: A marker genes based framework for metagenomic normalization and accurate profiling of gene abundances in the microbiome
Language:Python15 8 125

borenstein-lab's Repositories

borenstein-lab/microbiome-metabolome-curated-data
Language:HTML49 3 724
borenstein-lab/burrito
A visualization tool for exploratory data analysis of metagenomic data
Language:JavaScript35 11 369
borenstein-lab/fishtaco
FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of microbiome functional shifts
Language:Python23 7 144
borenstein-lab/MIMOSA
Model-based Integration of Metabolite Observations and Species Abundances
Language:R23 9 28
borenstein-lab/MUSiCC
MUSiCC: A marker genes based framework for metagenomic normalization and accurate profiling of gene abundances in the microbiome
Language:Python15 8 125
borenstein-lab/CoMiDA
The code and distributable for designing minimal microbial communities with specified metabolic functions.
Language:C++11 5 03
borenstein-lab/mimosa2
Language:R10 5 96
borenstein-lab/multi_view_integration_analysis
Language:R9 2 00
borenstein-lab/drug_microbiome
Data and code for paper "A data-driven approach for predicting the impact of drugs on the human microbiome"
Language:R8 6 00
borenstein-lab/MetaLAFFA
A bioinformatics pipeline for annotating functional capacities in shotgun metagenomic data with native compute cluster integration
Language:Python7 5 123
borenstein-lab/empanada
empanada is a tool for evidence-based assignment of genes to pathways in metagenomic data
Language:Python3 6 32
borenstein-lab/fishtaco-plot
Language:R3 6 00
borenstein-lab/microbiome-metabolome-evaluation
Language:R3 5 00
borenstein-lab/robustness_of_gut_microbiome-metabolite_associations
Language:R2 5 02
borenstein-lab/IFDP
Language:Python1 7 01
borenstein-lab/microbiome_temporal_alignment
Language:Jupyter Notebook1 6 0
borenstein-lab/MIMOSA2shiny
Language:R1 5 190
borenstein-lab/RDR
Language:R1 1 0
borenstein-lab/IIRN_multi_omic
Multiomic analysis for the paper titled "Integrative analysis of untargeted serum and fecal metabolome and gut microbiome reveals a role in Crohn Disease and with signals that precede a disease flare"
Language:R
borenstein-lab/longitudinal_interpolation
Language:Jupyter Notebook1
borenstein-lab/robustness
Language:R6 12
borenstein-lab/SOURCE_multiomics
Language:R6 0
borenstein-lab/T6SS
Language:Python5 0
borenstein-lab/vaginal_microbiome_manifold
Manifold detection
Language:Jupyter Notebook6 0