How I organize my bioinformatics work
Ғылым және технология
3 systems I use to keep myself organized when doing bioinformatics work.
These are lightweight, flexible systems built on top of git, basic text files, and a single Google Doc -- no to-do list apps here :)
0:00 Introduction
1:07 The lab notebook
5:05 The journal
11:17 The logs
Пікірлер: 15
Thank you!!! I've just started my PhD in Bioinformatics and love hearing about all the ways to organise everything. I will definitely be using the lab notebook and log systems. I already use VSC but never thought to use it like that!! Also a great way to share progress updates with my supervisor.
It was perfect. I'll get the git lab notebook and I use Trello as my everyday Kanban system (using it combined with the GTD approach) as a replacement for the Google doc. I like the minimalistic and so efficient way you use those tools :) Thanks a lot for sharing that :)
enjoyed reading your paper "Complex rearrangements and oncogene amplifications revealed by long-read DNA and RNA sequencing of a breast cancer cell line" ! !
Thank you!
These simple but informative videos really go a long way. Thank you for the video and great advice! Maybe a video on how you go through the literature will be helpful in the future 🙂
Thank you so very much!! 😊 I hope I can have ph.D. of Bioinformatics, haha
Thank you! I am currently a master student and hoping to enroll to a PhD in bioinformatics next year, can you make a video on how to prepare and get accepted please...
Congrats on using ISO date format.
Did you ever try any "pure" outliner like maybe Workflowy instead of Google Docs?
@OMGenomics
2 жыл бұрын
No, Google docs is perfect for my use case. There are benefits to using the same tool, for example it’s easy to copy things into other documents (like my team’s weekly sync doc) without worrying about formatting issues. Also the shortcuts are all the same so I get more efficient at writing all types of docs at once. I like to keep things simple, and to me Docs is simpler than anything else I could be doing. What do you use?
Wow! Nice, are you currently studying master these days?
Ever considered something like Roam Research or Logseq? I guess, it exactly does what you are doing, but offers a few more features for combining the journal part with the keeping-track-of-project part. Take a look and thank me later. ;)
@OMGenomics
Жыл бұрын
No, I think the universality of Google docs makes it the simpler choice. Especially since I’m copying status updates into other shared documents often, it’s nice to have the formatting and everything just work the same. So I’m very happy with this setup. Of course you can value other things in your tools than I do :)
Doing everything in cmd and copying commands into a markdown file is a good system. Meanwhile I’m clicking through GUI’s half the day and trying to remember what I clicked 🤔
Sent an email this morning, in gmail, to a colleague about a gene study I’m launching. Then this video appears in my KZread suggestions. - just in case you were wondering how closely Google follows your communications.