Huang (Frederick) Lin's repositories
ANCOM-Code-Archive
Archive: R functions for Analysis of Composition of Microbiomes (ANCOM). Please check our ANCOMBC R package for the most up-to-date ANCOM function.
ANCOM-BC-Code-Archive
Archive: Data, scripts, and outputs for the Nat. Comm. paper "Analysis of Composition of Microbiomes with Bias Correction". Please check our ANCOMBC R package for the most up-to-date ANCOM-BC function.
Microbiome-Review-Code-Archive
Data, scripts, and outputs for the npj Biofilms and Microbiomes paper "Analysis of microbial compositions: A review of normalization and differential abundance analysis"
SECOM-Code-Archive
Archive: Data, scripts, and outputs for the paper "Sparse Estimation of Correlations among Microbiomes (SECOM)". Please check our ANCOMBC R package for the most up-to-date SECOM functions.
ANCOM-BC2-Code-Archive
Archive: Data, scripts, and outputs for the paper "Multi-group Analysis of Compositions of Microbiomes with Covariate Adjustments and Repeated Measures". Please check our ANCOMBC R package for the most up-to-date ANCOM-BC function.
Gut-Microbiome-and-HIV-Infection
Scripts and outputs for the paper "Signature changes in gut microbiome are associated with increased susceptibility to HIV-1 infection in MSM"
Gut-Microbiome-and-Metabolic-Syndrome
The archive for data, scripts, and outputs for the paper "Bacterial and Immunological Mediators linking Caregiving with Metabolic Syndrome".
Gut-Microbiome-and-Sexual-Behavior
Scripts and outputs for the manuscript "The effect of sexual behavior on HIV-1 seroconversion is mediated by the gut microbiome and proinflammatory cytokines"
NMETH-A52201A-Reviewer-Comments
In response to reviewer #1
Oral-Microbiome-and-Chemical-Exposure
The archive for data, scripts, and outputs for the paper "Exposure to antibacterial chemicals is associated with altered composition of oral bacteria; the RHINESSA study, Bergen, Norway".