This repository contains code from the Paquette Lab for performing RNA sequencing analysis of Craniosynostosis phenotypes.

There are ten RMarkdown files that were each used for a different part of the analysis which include:

-Combined Model- Filtering

-Combined Model- Surrogate Variable Analysis and Voom Normalization

-Combined Model- Differential Gene Expression

-Female Model- Filtering

-Female Model- Surrogate Variable Analysis and Voom Normalization

-Female Model- Differential Gene Expression

-Male Model- Filtering

-Male Model- Surrogate Variable Analysis and Voom Normalization

-Male Model- Differential Gene Expression

-Comparison of Combined, Female, and Male Models