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index.Rmd
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---
title: "Esophogus-Microbiome-Cancer"
site: workflowr::wflow_site
output:
workflowr::wflow_html:
toc: false
editor_options:
chunk_output_type: console
---
Welcome to our research website.
# Data Pre-Processing
*[NCI-UMD Data Process](data_processing_nci_umd.html)
*[TCGA Data Process](data_processing_tcga.html)
*[Sample IDs with Abundances](ids_abundance_misc.html)
*[Testing replication](test-of-replication.html)
*[Waterfall Plots](waterfall-plot.html)
*[RNAscope test](data-check-for-RNAscope.html)
*[Boxplots for sample type by abundance](species-sample-type-combined.html)
# Specific Questions for Update
## Slide Figures
*[Slides for Updates with Figures Heatmaps with Dendrograms](slide-figures-heatmaps-dendrograms-updates.html)
## Q1: is there a taxonomic signature shared between the barrett's samples?
*[Results Question 1](results-question-1.html)
## Q2: What is the abundance of F. nucleatum and/or Fusobacterium between these samples? - same samples as above
*[Results Question 2](results-question-2.html)
## Q3: Is fuso associated with tumor stage in either data set? Does X bacteria predict stage? Multivariable w/ age, sex, BMI, history of Barrett's
*[Results Question 3](results-question-3.html)