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Edinburgh Genomics Training
United Kingdom
เข้าร่วมเมื่อ 19 พ.ค. 2020
A place for Bioinformatics training, tip-bits, and tutorials!
Welcome to R Studio!
Here at Edinburgh Genomics Training, we use the integrated development environment (IDE), R studio, for all our courses that have any component of R coding. It's a great tool so do have a go with it if you haven't before.
It can be downloaded for free from the R Studio website where there is also a lot of handy information to get you started in various R packages, including R studio itself. See: www.rstudio.com/
Happy Coding!
-Nathan (Training Manager, Edinburgh Genomics)
It can be downloaded for free from the R Studio website where there is also a lot of handy information to get you started in various R packages, including R studio itself. See: www.rstudio.com/
Happy Coding!
-Nathan (Training Manager, Edinburgh Genomics)
มุมมอง: 351
วีดีโอ
Renaming some files with a shell loop
มุมมอง 4.7K4 ปีที่แล้ว
There are many specialist programs out there for batch renaming multiple files, but with a little Linux knowledge all you need is a shell prompt. Presented by Tim Booth Edinburgh Genomics Training - genomics.ed.ac.uk/services/training
Introducing Snakemake
มุมมอง 15K4 ปีที่แล้ว
Snakemake (snakemake.readthedocs.io) is a great tool to construct and run data analysis pipelines. This talk is taken from the Edinburgh Genomics Snakemake course and introduces the core concepts of Snakemake (rules, wildcards, targets). For more information on this course and other Edinburgh Genomics training, see genomics.ed.ac.uk/services/training.
very well explained! 👍
Great intro. How about a video on some more advanced concepts in snakemake?
What kind of command is "go"?
Nice video. Thank you!
is this still current?
fabulous.
Thank you so much for sharing this video, it was really helpful and clear!
Many thanks! Could you kindly share the example data for us to practice?
Thank you for your video! Could you share the files you used in this tutorial so that I can follow along?
nice
awsome video. say i had to go into multiple directories to find the image example foo/bar/foo1/barr1/image.jpg would i need to do ${f%/} and append it recusivley for each directory or how would that work ? currently each directory is set up as a unique identifier key and we want to add those identifiers to the picture name to store important info
Thanks for sharing. 👍
You saved my ass! thank u!!
A big fat Thank you!!
you saved my life man..! thanks
this is was so well explained, thanks for your effort!
Hey very helpful video Can u share how to chop off all the file extensions in current directory and sub directories of current directory
Thank you so much! i really like your tutorial video. Your explanation is so much easier to follow than many other snakemake videos!!
Thanks for this!
Could have a repository with this examples, so we could try it.
Thank you so much for the clearest snakemake introduction! I couldn't help but notice the slide at 3:10 is like an example of functional programming pseudo code :)
Such a nice video, thank you so much!
Thanks Tim for this well explained renaming trick!. It is hard to get the 'How to think as a bioinformatician to handle the problem' out of a book. And not always easy to follow some bioformaticians in explenatory youtube films. But you did the best of 2 worlds here :-).
Thank you so much, I was really struggling with the concept of the wildcard placeholders but you explained them so well.
Thanks for the introduction, it's really useful!
his was very clear explanation .
Great stuff Nathan!
Exactly the tutorial I needed. Thanks!
it says target rules may not contain wildcards
Thank you
Very helpful and well explained! Thanks for the upload