introduction to workflow managers for pipelines & getting started with nextflow in bioinformatics

Most bioinformatics roles dealing with large volumes of data will require you to wrap your processing steps (a pipeline!) in a workflow manager. This video introduces you to the key concepts of what a workflow manager is, why it's important and guides you to some helpful resources for getting started with nextflow. Feel free to use the time stamps to skip to what you might find helpful. Enjoy!
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Welcome to Genomics with Georgia! I’m a self-taught bioinformatician/data scientist working in biological research. I share, on this channel, all about getting into this space. If you’re looking for an insight into the field of bioinformatics - start here! Welcome 💗

*TIMESTAMPS*
00:00 = Intro
01:13 = Pipelines recap
02:08 = GATK
03:44 = why use workflow managers
04:52 = examples
07:00 = !!
07:29 = Nextflow intro/why
08:21 = nextflow training
09:46 = key concepts of nextflow
09:56 = processes & channels
11:54 = resume/caching
13:00 = workflows
14:00 = work dir
14:35 = portability
15:25 = action points
16:10 = outro

*Links to mentioned helpful things & resources*

*Learn to code like me*
(Specifically, Learn Python3)

*Equipment* *

*these are affiliate links, I make a small commission but it costs you nothing extra

*Other videos you might like*

*Business Enquiries*

*Music Creds*
Creative Commons - Attribution-ShareAlike 3.0 Unported

Creative Commons CC BY-SA 3.0

Creative Commons CC BY-SA 3.0

Disclaimer:
The views and opinions expressed on this channel are my own and do not reflect those of my current or past employers. The content I share is for educational and informational purposes only and should not be considered professional advice. While I strive to provide accurate and up-to-date information on 'omics and career development, I encourage viewers to conduct their own research.

[keerthana]

THANK YOU! WE NEED MORE BIOINFORMATICIANS EXPLAINING THINGS IN LAYMANS FOR US NOOBS ❤❤❤

[AmyUcal]

Thank you so much! Really comprehensive and relevant video :)

[Pranav-dc]

your content and video production is impressive, keep it up!

[maxcummins]

Great video, nice work Georgia, thanks for your efforts

[SRIKANTHS-fupp]

Such an informative video! ! Thank you so much for making this one on my request and you covered almost everything that I wanted to get started with Nextflow ❤❤

[metehancelebi]

Hello! Such a great video, thank you ! I am also a bioinformatician who's working on cancer therapy research and doing a PhD in Germany. I have just find out this great channel which is pretty cool. I would be so glad if I could be able to contact you ! Thanks for awesome explanations.

[sedenions]

Thank you. Coming out of bioinfo master's degree with more structural experience (like molecular dynamics/docking), I need something like this. Since I fear I won't lab a job

[peaveyrage]

i like your content and i believe its underrated . i learn a lot from it and I've been following you for a while now. i think if you are interested in increasing your views it would prove beneficial to record using noise free microphones, like the ones being used for podcasts, to capture your voice with higher quality. thank you, keep up the nice work

[Bio_infoverse]

thank you for the video..keeps us students updated on whats being mostly used in industry. Btw, is there a way to ask you few questions that I might not be comfortable sharing here?? Thanks again

[AzanAbbasWani]

Any suggestion on were to start learning NextFlow? Like any course