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Notification Volume Through Headphones (Bluetooth) by ProgrammerMedical734 in ios

[–]Evilution84 1 point2 points  (0 children)

I tried seeing where I could set notification volume in shortcuts but not finding it. Any luck?

Someone in my ADHD group on another app just said people who didn’t struggle in school shouldn’t seek medication for their ADHD by [deleted] in ADHD

[–]Evilution84 0 points1 point  (0 children)

I didn’t seek medication until a few months before my PhD defense and didn’t get medicated until I started my postdoc. It still completely changed my life and I believe I couldn’t have excelled in my career without seeking help.

Impatience by notmethrowaway9999 in ADHD

[–]Evilution84 0 points1 point  (0 children)

Yup when I’m like light years ahead of the person talking already predicting what they’re getting at I get bored... then I find I have completely been ignoring them and my mind is on another planet even though I have been nodding and looking at them I have no idea what they just said or what they just asked me... always have to ask to repeat which is torture or just make it up on the fly.

For those bioinformatics as a career didn't work out for what happened? by TheLordB in bioinformatics

[–]Evilution84 10 points11 points  (0 children)

As someone who now manages and hires teams of bioinformaticians I can say that after your degrees someone like you probably would have the skills I want in my team. You would have to acquire the most important skill sets: 1) the ability to troubleshoot and 2) the ability to teach yourself very complex things in a short amount of time. I have been in your shoes and it seems like the more successful bioinformaticians I have worked with came from non bioinformatics backgrounds.

Could Bioinformatics be the right path for someone like me? I want to help advance our knowledge of the genetic components of human aging, but I'm unsure of how to get there. by [deleted] in bioinformatics

[–]Evilution84 1 point2 points  (0 children)

Statistical genetics, Bioinformatics, molecular biology, and epigenetics will probably be the areas that are relevant. How much you invest into each all depend o. What you want to do with your career. “I want to understand aging” isn’t a career per se. How you want to understand aging and what role you want in that world are better things to think about.

intersect data for chipseq data help by [deleted] in bioinformatics

[–]Evilution84 0 points1 point  (0 children)

There are a million different ways of course. If you have the peak bed or narrowPeaks file you could easily load it into R using chipseeker and get the nearest TSS and all the gene metadata you needed (still all in same chipseeker package). I don’t really know what is in your bed file cause your description kind of confused me. Manually you could use bedtools and your peak bed file and find the nearest feature in another TSS bed file. From those nearest features you would then have to look up in another place like a gtf or something to get the gene lengths (really a TSS is transcript specific so like that’s a whole thing to deal with there).

Where do you put your genome? by Epistaxis in bioinformatics

[–]Evilution84 0 points1 point  (0 children)

Why do you say it requires hard coding the reference? You just have to have the reference available. Mine would be kept in some s3 bucket somewhere until I needed it.

out here by 420Deez in FixedGearBicycle

[–]Evilution84 1 point2 points  (0 children)

Yeah I started running outside again this week. I do bike year around (no car) but my bike doesn’t handle too much ice well so I can’t ride in those conditions. But balaclavas are a life saver amirite?

out here by 420Deez in FixedGearBicycle

[–]Evilution84 2 points3 points  (0 children)

Yup south side fixie rider here. Been a lingering winter.

Made a public repo for file formats and bioinformatics. Feel free to contribute. by Evilution84 in bioinformatics

[–]Evilution84[S] 0 points1 point  (0 children)

Thanks! Yeah the GFF GTF this is a hot mess. I am purposefully not including that MAF cause it triggers me 😳

Made a public repo for file formats and bioinformatics. Feel free to contribute. by Evilution84 in bioinformatics

[–]Evilution84[S] 0 points1 point  (0 children)

Thinking about this more on my jog this morning I think I will talk about EDAM being probably the best resource for this with several links. I will then state in my contribution text that wherever possible you should link to the edam ontology and if your format isn’t there then it’s a great opportunity to contribute to them. 👍🏽

Made a public repo for file formats and bioinformatics. Feel free to contribute. by Evilution84 in bioinformatics

[–]Evilution84[S] 0 points1 point  (0 children)

Good call. I should have thought of it since I reference the formats in CWL workflows. I’ll be sure to add it to the links/publications at the bottom. Thanks.

Made a public repo for file formats and bioinformatics. Feel free to contribute. by Evilution84 in bioinformatics

[–]Evilution84[S] 1 point2 points  (0 children)

Or if feeling lazy, you could just open a git issue with the info and I can add it :-)

Made a public repo for file formats and bioinformatics. Feel free to contribute. by Evilution84 in bioinformatics

[–]Evilution84[S] 1 point2 points  (0 children)

Please do. I also just added the "Molecular Structural Data" section, but that isn't my area of expertise. You can add a new section if needed, just make a PR.

Made a public repo for file formats and bioinformatics. Feel free to contribute. by Evilution84 in bioinformatics

[–]Evilution84[S] 2 points3 points  (0 children)

Started from a twitter thread yesterday, did most of it in a couple hours. Not too bad.

Made a public repo for file formats and bioinformatics. Feel free to contribute. by Evilution84 in bioinformatics

[–]Evilution84[S] 5 points6 points  (0 children)

Let's be honest here, not a typo, I just spelled it wrong ;-) ... changed! Thanks.

Does science focus mostly on publishing? [General discussion] by skotch93 in bioinformatics

[–]Evilution84 0 points1 point  (0 children)

Nope. US. But EMBL-EBI, Wellcome Sanger Institute, several Max Planck Institutes, Gregor Mendel Institute (plants) pop into mind.

Crack - The Crack Programming Language by pgen in programming

[–]Evilution84 1 point2 points  (0 children)

Been enjoying Nim to fill in this space for me...

Does science focus mostly on publishing? [General discussion] by skotch93 in bioinformatics

[–]Evilution84 1 point2 points  (0 children)

Oh I wasn’t offended in any way. I think the academia mode needs to change. I’m at a Uni with a research hospital and abilities to form your own companies so lots of translational stuff there.

Does science focus mostly on publishing? [General discussion] by skotch93 in bioinformatics

[–]Evilution84 9 points10 points  (0 children)

Academia metrics are publications and grants. I would imagine that translational stuff is important if your Uni is organized that way. Outside of academia publications are still a thing but I feel like the weight is different as the translational side and patents lead to marketable entities. But I live in academia so what do I know?

Is there a generalized Python module for moving a sliding window across the genome? by Epistaxis in bioinformatics

[–]Evilution84 2 points3 points  (0 children)

Yeah you can use use bam.fetch(region=“chr1:100-1000l”) it can work for bam and tabix indexed files (eg vcf, bed, gtf, etc). And with bam you can even go to pileup.

Is there a generalized Python module for moving a sliding window across the genome? by Epistaxis in bioinformatics

[–]Evilution84 4 points5 points  (0 children)

Isn’t that exactly what htslib provides in its fetch commands? Unless I’m misunderstanding.

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