Assignment 1 Katja Garina

kgarina commented 1 year ago

Introduction

Hi, I am Katja Garina and I am a second year PhD student at the Reactor Institute.

Describe your research in 2-3 sentences to someone that is not from your field (please avoid abbreviations)

My research is about food. More specifically, about meat alternatives. We are trying to understand how the plant-based meat alternative structure looks like on different length scales and how we can tune it, so that in the end we will have a meat-like texture.

My research entails the following aspects:

Research Aspect	Answer
Use/collect personal data (health data, interviews, surveys)	No
Use/collect experimental data (lab experiments, measurements with instruments)	Yes
Collaborate with industry	Yes
Write/develop software as the main output of the project	No
Use code (as in programming) for data analysis	Yes
Work with large data (images, simulation models)	Yes
Other:	N/A

Reflections on the importance of RDM videos

I think the video demonstrates the importance of proper data storage very well. I also was surprised by how easily data can be manipulated and used incorrectly. So far, I don't have any horror stories and hope it will happen in the future.

What would you like to learn during this course?

I work with large data obtained at different research facilities. In principle, I can always download my original data from them if my data is lost. However, data processing takes enormous amount of time. So, it would be nice to organize proper storage of my processed data.

Checklist assignments

[x] Assignment 1: creating a GitHub issue (before Class 1)
[x] Respond to the GitHub issue on 'data challenge'
[x] Assignment 2: Data Flow Map 1 (share a link in this issue before 17 May 13:00). Link: Data Flow Map 1
[x] Provide feedback to at least one Assignment 2 from another participant
[x] Respond to the GitHub discussion on 'licenses'
[x] Respond to the GitHub discussion on 'folder structure'
[x] Respond to this GitHub issue with your readme file
[x] Provide feedback to at least one readme file from another participant
[x] Assignment 3: Data Flow Map 2 (share a link in this issue before 31 May 13:00). Link: Data Flow Map 2
[x] Provide feedback to at least one Assignment 3 from another participant
[x] Assignment 4: Data Management Plan (before Class 2)
[ ] Respond to the GitHub discussion on 'Data Management Plans' if you have any questions (optional)
[x] Assignment 5: Data Flow Map 3: submit your slide (before Class 2)

S-Aron commented 1 year ago

Hi, I would consider to keep/create a backup on the Project Drive immediately after the measurements and not just having it on the SSD. Just in case.

EstherPlomp commented 1 year ago

Hi @kgarina! Thanks for handing in assignment 2! Well done: it looks very extensive!

I therefore only have three comments/suggestions:

I agree with @S-Aron that backing up all the data may be worthwhile, instead of only the 'most useful' data.
I didn't see any file formats: this becomes more important for the follow up assignment!
You mention above that you work with code but I'm not sure where that fits with the assignment: is that part of the 'pipelines'?

AnaSacristan commented 1 year ago

Hi Katja, I imagine that you will also be producing a lot of images from the data you collect (Spectra in the format of images for later publication and for your thesis). Perhaps you can consider this types of files as another category and also store it under the Project Drive as you create them. 🙂

kgarina commented 1 year ago

Here is my Readme file: Katja Garina_ReadmeTemplate.txt

EstherPlomp commented 1 year ago

Hi @kgarina; Hereby your feedback for your readme file! It already looks very clear: well done!

For the license/restrictions you can refer to your preferred licence: CC-BY-SA. This places some requirements on the dataset: citation and if redistributed it should be under the same license.
It may be helpful to have some more description about what 'normal' conditions would look like. Is there a file that would describe this? Perhaps a methods section in a (future) article?
And very nice to see that you already have an ORCID!

kgarina commented 1 year ago

Hi @kgarina; Hereby your feedback for your readme file! It already looks very clear: well done!

For the license/restrictions you can refer to your preferred licence: CC-BY-SA. This places some requirements on the dataset: citation and if redistributed it should be under the same license.

It may be helpful to have some more description about what 'normal' conditions would look like. Is there a file that would describe this? Perhaps a methods section in a (future) article?

And very nice to see that you already have an ORCID!

Hi @EstherPlomp, thanks for your comments! For my samples, it is not that important to specify the conditions. The point is that no temperature control was used.

EstherPlomp commented 1 year ago

Hi @kgarina - thanks for updating the link to assignment 3! Slowly we'll get through the OneDrive issues :) Everything looks very clear - well done!

Metadata

Thanks for sharing that screenshot capturing your metadata, that makes it a lot clearer! Including the parameters sounds like a good idea 👍

Access

More of a question from my side: Do you find the Teams channel easy to use to collaborate/exchange data with others?

lindaiqi commented 1 year ago

Hi @kgarina , I read your Data Flow Map from assignment 2. It seems your data flow is organized chronologically. This is a good idea and it makes everything clear and reasonable. There are some abbreviation that could make layman confused.

EstherPlomp / TNW-RDM-101