A lover of nature insisting that we don't know why the climate is changing is like RA Fisher denying cigarettes cause cancer.

Man I was listening to a birding podcast to escape everything and fantasize about traveling and the guest had to go and deny humans are causing climate change and ruin it.

Love Buzz - Nirvana Live at Dreamerz 1989-07-08

archive.org/details/ajc0...

In 1997, this is what I thought the internet would be.

Holy shit, this is amazing.

trump people caring about this supports my hypothesis that I have literally no idea what the hell has been happening for the last ten years.

I lived in Moscow for three years and seeing these psychopaths place one of their own as secretary of defense has been terrifying.

No less disgusting but I think a more accurate characterization is that he believes black people were better off as slaves. He's flexible about how exactly to institutionalize christian white male supremacy.

What happens *after* enemy release? In a new paper, we present 7 years of infection & immune trait dynamics in 16 lake populations of stickleback.
www.journals.uchicago.edu/doi/10.1086/...
This is definitely the longest-scale study I've done in my career, I'm very excited to see it out.
1/6

It's like every Zoom meeting. "We hear you, do you hear us?" "You're muted."

Playing God – How the ESA “God Squad” just voted for the extinction of a uniquely American whale

www.southernfriedscience.com/playing-god-...

a single static binary with no runtime dependencies, huh?

A WHOLE CIVILIZATION WILL DIE TONIGHT My son needs lunch, and I have to put his backpack together, but a whole civilization will die tonight, so I'm wondering if they've closed their schools. Like, a snow day, maybe, except instead of snow it's "keep your children home so if you die, you die together" — instead of "well open back up once the plows have cleared" it's "we don't know if we'll be here tomorrow, hold your babies tight." It's just "talk" I'm told, which I've been told before. "It's how the president makes his deals." But I've never heard anyone talk about other human beings this way, and I'm not certain I can look my son in the eyes if we all agree to stomach it one more time. A civilization will die tonight, but as I zip up his backpack and kiss him off to school I think: if this is what we call leadership then I'm not entirely sure ours isn't already dead. @michaelfdubois Mukad A QuBoy @michacifdubois

Brutal.

It beggars belief that anyone still calls these purges "cost-cutting moves".

Sudden changes to HPC access policies creating chaos at the end of the week here.

A line grant of the cumulative numbers of awards for NSF from fiscal years 2021-2026. The curve for fiscal year 2026 lies below well the other curves.

NSF update

Still looking very bleak.

4/5

buddy, you can just use the block button. you can close your replies except to people you follow or who follow you. you have much more control over your experience here than on the nazi website whose owner is trying all day to turn you into a nazi.

New preprint! We sequenced 175 'Alalā (Hawaiian crow) genomes to understand why >50% of eggs fail to hatch in a species recovered from just 9 individuals. What we found was a both exciting and surprising. www.biorxiv.org/content/10.6...

I respect your decision to avoid avalanches of toxic nonsense, but what a loss. I have really, really appreciated your summaries and hope you will reconsider at some point.

Ever receive a BAM aligned to “GRCh38” and realize that could mean several different references?

We just released ref-solver, a tool that identifies the reference genome behind BAM/CRAM/FASTA files by comparing sequence dictionaries to known builds.

🔗 whatsmygenome.fulcrumgenomics.com

Read more 👇

SRA has dozens of accessions with inconsistent labeling for each sample. internationalgenome.org also has a confusing and inconsistent data presentation and apparently no programmatic access (?). Am I missing something?

I have some bioinformatics students who would like to do an independent project analyzing some 1k genomes data (from raw fastq). It seems like figuring out which files to actually use is kind of nightmare.

This is absurd.

Figure 1 from Paabo et al 2026 paper, titled "A high-coverage Neandertal genome from the Altai Mountains reveals population structure among Neandertals". Image shows a map, photo of fossil fragment, and data on DNA. Caption text: "Neandertal D17 and its relationship with other Neandertals. (A) Locations of high-coverage Neandertal genomes used in the study. (B) Picture of the undiagnosed bone fragment from Neandertal D17. (C–F) Relative derived allele sharing between Neandertal genomes, computed using D-statistics of the form D-(ind1, ind2; ind3, Mbuti), where ind3 is either (C) Neandertal D17, (D) Neandertal D5, (E) Neandertal Chag8 or (F) Neandertal Vi33.19. In each panel, ind1 and ind2 are indicated at the Left and Right of the graph. Positive values indicate greater allele sharing between ind3 and ind1; negative values indicate greater allele sharing between ind3 and ind2. |Z-score| ≥ 3 are in red. (G) Schematic phylogenetic relationships among Neandertal D17, other archaic genomes, including the Denisovan D3, and modern humans inferred from autosomal DNA analyses using branch shortening and demographic modeling with cecast and F(A|B) statistics (SI Appendix, SI Appendix 6, 10, and 12). (H) Schematic mitochondrial (mt) DNA inferred from a Bayesian tree estimated using BEAST2 from previously published study on D17 mtDNA (11). (I) Y chromosome phylogeny as inferred from a Bayesian tree estimated using BEAST2 including previously published Y chromosomes of the Denisovan Denisova 8 (D8) and Neandertals Mezmaiskaya 2 (Mez2) (12) and Chagyrskaya 2 (Chag2) (7) (SI Appendix, SI Appendix 18).".

🧪🦣 🧬 New #Neanderthal genome just dropped!

Denisova cave male, c. 120 Ka, some Denisovan ancestry, and living in very small effective breeding population <50.

www.pnas.org/doi/10.1073/...

our cluster's 21 day time limit appears to give slurm all kinds of indigestion.

Yes, single individual. The student who did this is aware that sex chroms should be excluded. I will double check.

an obscure forest dwelling west african small mammal. I will talk to the genome assemblers but I think in general they know their stuff!

that is my inclination, I just can't picture a data artifact that would do this. new to using dipcall to try to make these plots with haplotype phased assemblies though and I don't have a good sense of what kind of problems might crop up.

also the generation time and mutation rate were set arbitrarily by the person who did this who was just messing around with numbers.

a psmc plot showing population size over time for a mammal species

#popgen question: has anyone seen a psmc plot like this? made from a haplotype-phased assembly and variants from dipcall. I guess if it's real, could it be a result of pop struct. from 2e-5 to 1e-6? Could it be a hybrid? What kind of assembly/variant calling artifacts might produce this?