Knight Lab Analyses

american-gut-analyses

birdman-analyses

horseshoe-analyses

knight-docs

General Knight Lab documentation and reference cards

multiomic-cooccurrences

mycobiome

Pan-cancer mycobiome atlas

qiita-paper

reference-frames

sample-size-stat-power-clinical-microbiome

uc-severity-multiomics

knightlab-analyses/multiomic-cooccurrences

knightlab-analyses/mycobiome

Pan-cancer mycobiome atlas

knightlab-analyses/birdman-analyses

knightlab-analyses/uc-severity-multiomics

knightlab-analyses/qemistree-analyses

Analyses of metabolomics data using q2-qemistree

knightlab-analyses/BayesTime-analyses

analysis code for BayeTime manuscript on simulations and microbiome applications

knightlab-analyses/bloom-analyses

knightlab-analyses/circadian-ihc

Circadian Experiments - Microbiome, Metabolome

knightlab-analyses/evident-analyses

knightlab-analyses/faiths-pd-benchmarking

knightlab-analyses/imsms-ml

Data exploration and analysis scripts for the machine learning analysis of the iMSMS collaboration.

knightlab-analyses/umap-microbiome-benchmarking

knightlab-analyses/CR-2021

knightlab-analyses/empress-analyses

Analyses, figures, and artifacts for Empress.

knightlab-analyses/greengenes2

knightlab-analyses/mfpca-analyses

code of simulations and real data applications for MFPCA manuscript

knightlab-analyses/nutrition-gut-microbiota-mumbai

knightlab-analyses/anaerobic-digesters

knightlab-analyses/dynamics

Analysis of Multiple Circadian/Longitudinal Datasets

knightlab-analyses/longitudinal-osa

Longitudinal OSA Experiments - Lesion, Microbiome, Metabolome

knightlab-analyses/marmoset-diet-change

Shotgun metagenomic analysis of laboratory-house common marmoset breeding colony that switched from pelleted to gel diet

knightlab-analyses/regression-benchmarking

knightlab-analyses/SAF-PP-JPL

16S analysis for assessment of the NASA Standard Spore Assay in Predicting Bacterial Populations of a Mars Mission Assembly Facility

knightlab-analyses/Saliva_quantification_study

knightlab-analyses/seeding-study

Restoration of the microbiome trajectory by vaginal seeding of C-section born infants

knightlab-analyses/stability-analyses

code for simulation studies and experimental microbiome data applications in Stability manuscript

knightlab-analyses/stein-schizophrenia

knightlab-analyses/unifrac-colab-notebooks

Notebooks for use on Google Colabs

knightlab-analyses/version-testing-fastp-minimap2

version-testing for fastp-minimap2

knightlab-analyses/vitamin-d

notebooks for MrOS Vitamin D manuscript