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index.Rmd
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index.Rmd
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---
title: "Home"
site: workflowr::wflow_site
output:
workflowr::wflow_html:
theme: journal
toc: false
---
# **Pairwise Comparisons of Conditional Selection**
* ###Click [here](pairwise_comparisons_conditional_selection_simulated_cohorts.html) to see pairwise comparisons of conditional selection applied to simulated cohorts
<img src="assets/atisubsamplingsims.png" width="600" height="300" alt="">
* ###Click [here](alkati_subsampling_simulations.html) to see subsampling simulations on ALK^ATI^ data.
<img src="assets/alkati_subsampling_simulations.png" width="600" height="300" alt="">
* ###Click [here](ALKATI_Filter_Cutoff_Analysis.html) to see my results on ALK^ATI^ filter cutoff analyses.
<img src="assets/aticutoffs.png" width="400" height="400" alt="">
* ###Click [here](ALK_ExonImbalance_SKCM_Analysis.html) to see my results on ALK-expression in SKCM.
* ###Or click [here](tcga_skcm_data_parser.html) to see my analysis code for ALK-expression in SKCM.
<img src="assets/atiskcmexpression.png" width="300" height="300" alt="">
* ###Click [here](TCGA_luad_data_parser.html) to see my results on ALK expression in lung cancer.
<img src="assets/atiluadexpression.png" width="300" height="300" alt="">
* ###Click [here](tcga_luad_data_parser_egfr.html) to see my results on EGFR expression in lung cancer
<img src="assets/egfrluadexpression.png" width="300" height="300" alt="">
* ###Click [here](baf3_alkati_transformations.html) to see ALK^ATI^ transformation data in Ba/F3s showing that it is not sufficient in melanoma.
<img src="assets/baf3_alkati_transformations.png" width="300" height="300" alt="">
* ###Click [here](alkati_cell_line_tae684_response.html) to see ALK^ATI^ melanoma cell line expression data analysis showing that ALK^ATI^ is does not confer a strong single agent therapeutic dependence.
<img src="assets/ccle.png" width="300" height="300" alt="">
#### Click [here](https://github.com/pritchardlabatpsu/pair_con_select) to be redirected to the github page that contains all my data.
What is in each directory:
* __Data__: contains data downloaded prior to analyses.
* __Output__: contains data that the code makes
* __Analysis__: contains your Rmarkdown files with the code.
* __Docs__: contain the html output from the Rmd files in the analysis directory.
* __Code__: contains .R files that are functions that the Rmd files in the analysis folder use.