Last updated: 2020-02-06

Checks: 1 1

Knit directory: Fiber_Intervention_Study/

This reproducible R Markdown analysis was created with workflowr (version 1.5.0). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.


The R Markdown file has unstaged changes. To know which version of the R Markdown file created these results, you’ll want to first commit it to the Git repo. If you’re still working on the analysis, you can ignore this warning. When you’re finished, you can run wflow_publish to commit the R Markdown file and build the HTML.

Great! You are using Git for version control. Tracking code development and connecting the code version to the results is critical for reproducibility. The version displayed above was the version of the Git repository at the time these results were generated.

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Ignored files:
    Ignored:    .Rhistory
    Ignored:    .Rproj.user/

Untracked files:
    Untracked:  analysis/lme_alpha.Rmd
    Untracked:  analysis/lme_microbiome.Rmd
    Untracked:  code/get_cleaned_data.R
    Untracked:  data/Microbiome Data/NoahFolder/Copy of Data_Fiber_Jul25_2019.xlsx
    Untracked:  data/Microbiome Data/NoahFolder/Copy of Fiber Study Blood Results_May2019.xlsx
    Untracked:  data/Microbiome Data/NoahFolder/Data_Fiber_2020_02_06.xlsx

Unstaged changes:
    Modified:   analysis/index.Rmd
    Modified:   code/get_data.R
    Modified:   code/load_packages.R
    Modified:   code/microbiome_statistics_and_functions.R

Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.


There are no past versions. Publish this analysis with wflow_publish() to start tracking its development.


Welcome to our research website. This page will contain links to the results pages from our study.

Describing the data:

*Data Summary Statistics

*Data Pre-Processing

Alpha Diversity

*Initial Alpha Diversity Figures

Analyses of Change over Time

*Changes in Alpha Diversity

*Changes in Phylum Abundance