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Dave Carlson

@davecarlson.bsky.social

PhD in EcoEvo. Bioinformatics & High Performance Computing. Transposon enthusiast.

602 Posts694 Follower929 Folgt
Joanna Masel@joannamasel.bsky.social · last wk.

Our paper on how better amino acid substitution matrices trained on cleaned alignments improve gene tree inference, and on best practice for cleaning MSAs more broadly, is now out academic.oup.com/mbe/advance-.... New options in both IQTree and Muscle5. @phylowheeler.bsky.social

Improved gene tree inference from removing alignment errors both from focal genes and when training substitution models

Abstract. Multiple Sequence Alignment (MSA) is a key step in phylogenetic analysis and is prone to error. Unfortunately, algorithms that remove likely alig

academic.oup.com

Joanna Masel@joannamasel.bsky.social · 8mo ago

Sequence alignments are notoriously prone to error. Our latest preprint offers a new tool for filtering errors out, assesses it and other filtering tools, and recommends new best practice. www.biorxiv.org/content/10.6... @phylowheeler.bsky.social 1/10

Ryan Moulton@moultano.bsky.social · 2w ago

I'm actually astonished at how clean this graph looks as a diagnostic for our housing ills. Note how close it is to 1 at the start. Houses per single adult or married couple.

Houses per (population over 25 - married couples) Subtracting married couples prevents them from being counted twice, since a married couple doesn't need 2 homes, but 2 single people (ideally) do.
Sarah McAnulty, Ph.D.@sarahmackattack.bsky.social · 2w ago

As the people in power destroy the mechanisms that generate inspiration in the natural world, rest assured that nothing could stop me from continuing to be a bit of a psycho on behalf of nature. If I can get more funding I'll continue empowering other nutjobs to do this work alongside me.

Asher Elbein@asherelbein.bsky.social · 2w ago

"Most of the affected employees were at National Geographic, both at the cable network as well as editorial and operations." 🫠

Arif M@arf-mln.bsky.social · 2w ago

Very excited to see the first chapter of my PhD out on bioRxiv! It began as a rotation project and became a pivotal part of my PhD on beetles, adding a complementary macroevolutionary perspective to my second chapter on early-stage speciation in Indonesian herbivorous ladybird beetles.

bioRxiv Evolutionary Biology@biorxiv-evobio.bsky.social · 2w ago

338 coleopteran genomes reveal exceptional rearrangement variation compared to other insect orders https://www.biorxiv.org/content/10.64898/2026.07.17.739156v1

Max Kennerly@maxkennerly.bsky.social · 3w ago

Yet another Kalshi offering that serves no legitimate economic purpose. It's not possible to make a rational bet on this without material non-public information. It's a market solely for fraud by both regulators and corporate insiders, and everyone connected to it in any way should go to prison.

Kalshi Will Offer Sports-Style Betting on Drug Trial Results

Kalshi Inc. is expanding in biotechnology by offering wagers on the outcomes of clinical trials and regulatory decisions, giving traders a more direct way to bet on key industry catalysts.

bloomberg.com

Steven Salzberg@stevensalzberg.bsky.social · 4w ago

Our new genome annotation method relies almost entirely on transcriptome and alignment evidence, and as a result outperforms pretty much all other de novo pipelines. Check out the just-published paper led by Aleksey Zimin: rdcu.be/frSOg

Efficient evidence-based genome annotation with EviAnn

Nature Methods - EviAnn surpasses existing genome annotation methods by leveraging gene expression and protein sequence homology evidence to achieve higher accuracy and efficiency.

rdcu.be