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Kevin Blighe
Useful productivity tools for bioinformaticians
I am wondering which productivity tools you use as a bioinformatician to improve the productivity of day to day work. For example using git, nextflow etc.
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maya.krapivnyk.ddi •
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I second ncdu.
I also like:
- https://github.com/jeffkaufman/icdiff
- https://github.com/b-ryan/powerline-shell
- https://github.com/nvbn/thefuck (Partially for lulz)
- https://github.com/wting/autojump
- https://github.com/akavel/up
- https://github.com/chrissimpkins/Crunch (Used surprisingly frequently for scientific images to shrink them for manuscripts etc)
I have a lot of sysadminy stuff rather than pure productivity per se. Lots of my productivity is just stuff in dotfiles.
Undoubtedly loads more I forget now.
an obvious one: awk ! :)
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lieven.sterck
ncdu for checking disk space used and number of files: https://linux.die.net/man/1/ncdu
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colindaven
https://atom.io/packages/split-diff And then using it for "normal" non code text files
Asana, Trello are good ones
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You mean aside from the coffee-maker?
I label my bioinformatics calendar as "before Snakemake" and "after Snakemake"
"Other workflow managers are available".
But yeah. Use a workflow manager
I would highly recommend this book "wicked cool shell scripts" https://nostarch.com/wicked2 . One of my favorites from the book is the command line notepad . Most times you are on the terminal and want to write a quick note without moving, it can be easily done with the note shell script. note . The notes are saved to the file .Remember in the home. I twicked it by adding git and date and timestamps to notes. The book is littered with Gems.