Effect of Digoxin on clusters of circulating tumor cells in patients with metastatic breast cancer: a phase 1 trial
A workflowr project.
Raw data is available at Gene Expression Omnibus (GEO, NCBI; accession number XXXXX). Data processing is computationally expensive and is not covered in this repository. We provide description of the data pre-processing workflow together with software version in the original publication. Processed data, large result files, additional functions, references and metadata are were archived at
To reproduce our analysis, first clone source code from the GitHub repository. This repository is also archived at
git clone https://github.com/TheAcetoLab/dicct-trial
Next, download processed data deposited in Zenodo into the cloned project folder ./data directory and untar the files.
for file in *.tar.gz; do tar xzvf "${file}" && rm "${file}"; done
The results form our analyses are listed below in webpage format. They were generated from R Markdown documents deposited in the GitHub repository. The workflow of the analysis was created using the workflowr R package and can be reproduced in its totality using workflowr wflow_build command after the installation of the proper R packages. Session info, including R and package versions, was automatically included at the end of each analysis file.
Files containing pre-computed results from differential expression or gene-set enrichment analyses were deposited in 
eval = FALSE to eval = TRUE in the specific code chunk from the R Markdown file. The expected run time using the data deposited in the zenodo directoy