Category Archives: Sharing Reproducible Research

Hi all, This is my week 9 which is the last week. I have had a wrap up process to clean up the codes and documentations for the codes to make sure everything executable for others who might want to use it. Furthermore, I did give a presentation about what Continue reading Week 9 – Wrap up and summary→

Hi all, In my week 8, I have focused on: storing additional provenance information that a result in a package is derived from which object in another package (we call it stiching for now), and updating the bundling script introduced last week as well as the test of a tale Continue reading Week 8 – Stitching two packages using provenance→

Hi all, This is my week 7. I have mainly done 3 major things: 1) final check of transparency and reproducibility plus creating a script that bundling newly generated products together to publish at once, 2) testing the new bundle in Whole Tale (WT), and 3) brain storming of how Continue reading Week 7 – Bundle all together→

Hi all, In my week 6, I have mainly improved the scripts for the cases I introduced last week. To remind, there are two cases we defined: 1) transparency (understanding of what has happened and validate the information given) and 2) reproducing (intermediate) outputs. For transparency, an improvement done is Continue reading Week 6 – Improvements of Transparency and Reproducibility→

Hi all, This is my week 5. Since I have had an actual scientific use case, I have distinguished and generated two different cases 1) transparency (understanding of what has happened and validate the information given) and 2) reproducing (intermediate) outputs. 1) Transparency This case mainly shows how to capture Continue reading Week 5 – Transparency and Reproducibility→

Hi all, In the week 4, with an actual scientific dataset, I practice and generate some scripts for completing the whole process, i.e., getting a use case (downloading from DataONE), reproduce and update the objects in it, and publish the updated package to DataONE. The use case is about analysis Continue reading Week 4 – Use case exploration→

Hi all, In the week 3, the goal was to learn and play more about Whole Tale, and also get used to provenance tools for R scripts (e.g., recordr) and have some use cases to capture provenance over that data packages using those tools. As an extension of the work Continue reading Week 3 – Provenance exploration→

Hi all, This is my second week. The goal of this week was to expand the use of the systems for the actual computational study through Artic Data Center (ADC), and focus on the use of provenance for the packages in the study. Bertram(my mentor) and I also had an Continue reading Week2 – Exploration of DataONE and Whole Tale→

Dear all, My name is Seokki Lee and I’m the intern working on “DataONE Project 1: Sharing reproducible research through DataONE and Whole Tale”. The project focuses on using provenance tools and standards from DataONE enabling the result of computational syntheses from empirical science to be stored in a fully Continue reading Week1 – What is DataONE and how provenance is used→