Lightnews — Scholar-powered news

Jeffrey Ross-Ibarra

@jrossibarra.bsky.social

7.7K followers 1.9K following 4.4K posts

evolutionary genomics of maize and wild relatives. erstwhile ethnobotanist. purveyor of bad puns. dad. prof and HPC director at UC Davis. not actually a cool cow from 1994. rilab.ucdavis.edu. views, especially bad ones, mine only (he/him)

Posts Media Videos Starter Packs

Pinned

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · Jul 22

Something something Panglossian paradigm

2 4 40

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1h

Damn, back in my day we only worried about razors.

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 12h

I knew I should have paid for the high end library prep kit…

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 16h

You’d have to be bananas bread to even try. I of course did, with an online aligner, and the browser cookies nearly crashed my computer.

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 17h

This is why shortbreads are bad to sequence with. They just bounce right off.

3 9

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 17h

You mean the ICNafpl, right?

1 2

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 19h

Agreed!

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 21h

So, like short read data too (curse you, autocorrect!)

1 3

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

Your regular reminder that plant genomes are messy. Good luck getting your shortbread data to recapitulate this:

4 8 92

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

amusingly I don't even know what repo this is for -- a colleague sent this screenshot she had apparently taken at the time, bemused by my commit message.

1 1

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

Even if it were accurate it seems like “tech that keeps people alive” should be pretty far down the list of climate change targets. Below lots we all do for convenience or money.

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

No, nothing that sophisticated. I was just trying to reproduce Homer backing into the hedge.

1 3

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

Homer, as always, is my muse.

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

If only someone had warned us: pubmed.ncbi.nlm.nih.gov/33453139/

And warned us again:
onlinelibrary.wiley.com/doi/10.1111/...

But damnit this could be more useful if I could simulate missing... oh wait
www.biorxiv.org/content/10.1...

2/2

pixy: Unbiased estimation of nucleotide diversity and divergence in the presence of missing data - PubMed

Population genetic analyses often use summary statistics to describe patterns of genetic variation and provide insight into evolutionary processes. Among the most fundamental of these summary statisti...

pubmed.ncbi.nlm.nih.gov

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

Everyone knows the potato peels go first THEN the coffee. A few scoops of sand helps the sink digest it all too.

1 3

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

Pretty close, but you switched the one on the left and the middle. Don’t fret too much, the taxonomy is difficult.

1 5

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

Well this is a commit from 2018 so long past time for either option

1 1

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

Lots of things can be hidden in a corn field.

3 2 11

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

You're right! I was like 6 years ahead of my time!

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

Maize is easy. It’s so diverse, You could probably make a mammoth with six or seven generations of selection.

1 1 12

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

One of my finer commit messages

8 7 160

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 1d

This is pretty brilliant. If we turn orchids into mammoths 1) we avoid lots of IRB issues with work on animals until the very end 2) we save on orchid food. We might have to edit a few more genes, but I'd say 30 or 40 oughta do it.

1 10

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 2d

Fake news. en.m.wikipedia.org/wiki/DeBruce...

DeBruce Grain Elevator explosion - Wikipedia

en.m.wikipedia.org

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 2d

Argh. Autocorrect ruining my puns. Differences in masa not mass.

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 2d

Obviously the bovine firewall weighs more, but once you acownt for differences in mass percentage corn is about zea same.

1 2

Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 2d

And, as in epistatic thought he stood,
The Jabberwock, with eyes of flame,
Came whiffling through the tulgey wood,
And pleiotropy as it came!

1 1 1