@rmflight@mastodon.social avatar

rmflight

@rmflight@mastodon.social

Research parasite* @universityofky. Interested in #openscience, #rstats, bioinformatics, #datavis he/him

*One who uses others data to conduct research, both publicly available data, and those from direct collaborations.

#fedi22

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rmflight, to random
@rmflight@mastodon.social avatar

My search foo is failing me.

@hrbrmstr had a Daily Drop post highlighting a variety of methods for enabling parallel processing not that long ago??

I cannot find the drop in my email, or on substack, or in my bookmarks here, which is really, really odd, b/c I commented on it even.

Help?

jonny, to random
@jonny@neuromatch.social avatar

I think in the future if I am ever writing a code paper I am just going to take the list of contributors and copy paste that into the authors list with links to a git blame (with consent). If we're going to have a credit assignment system as broken as authorship, we can at least err on the "include everyone" side of the brokenness - I want the person who submits a PR to fix a typo in the docs to get credit for helping. People being incentivized to make lots of little contributions is good, actually.

It should be the same way with regular papers too - put your lab techs and undergrads on the paper! Put on the grad student/postdoc who isnt explicitly assigned to this project but ends up helping out anyway. Its literally free! Authorship inflation is a made up problem thats not even a problem!

rmflight,
@rmflight@mastodon.social avatar

@jonny I've seen a couple of people do this previously, if I remember C. Titus Brown did so, and took a lot of flack from some corners for it at the time. I'd hope that attitudes have changed, especially around software. But yeah, in general we need to be more open about offering authorship for any kind of contribution to the project.

erictopol, to random
@erictopol@mstdn.social avatar

The most comprehensive lab assessment of including the immune system, cortisol, other viral pathogens (such as EBV), & proteins differentiates those affected (aligned w/ self-reported symptoms) with very high (96%) accuracy
https://nature.com/articles/s41586-023-06651-y

rmflight,
@rmflight@mastodon.social avatar

@erictopol did they compare this to other likely viral induced fatigue conditions like chronic fatigue syndrome / fibromyalgia etc??

gabbspalomo, to random
@gabbspalomo@fosstodon.org avatar

Wait a minute. So there’s purrr and furrr. So furrr is purrr but in parallel? 🙀 Is this correct? Oh I am so going to learn more about furrr now! Also what’s up with those names? 😹😹😹

rmflight,
@rmflight@mastodon.social avatar

@gabbspalomo Yep, that's correct.

Where you would have used purrr::map, you can swap in

future::plan(multicore) # for instance  
furrr::future_map()

And away you go.

erictopol, to random
@erictopol@mstdn.social avatar

The rise of Type 2 diabetes among youths (age ≤ 19) during the pandemic, as assessed by Kaiser Permanente So Cal

https://jamanetwork.com/journals/jamanetworkopen/fullarticle/2809781?utm_campaign=articlePDF&utm_medium=articlePDFlink&utm_source=articlePDF&utm_content=jamanetworkopen.2023.34953

rmflight,
@rmflight@mastodon.social avatar

@erictopol 😲

Drmowinckels, to random
@Drmowinckels@fosstodon.org avatar

@jadeynryan talking about parameterized reporting with

I've been doing that in rmarkdown but not tried on Quarto yet. So cool to see real life examples!

@rladies_bot

rmflight,
@rmflight@mastodon.social avatar

@ataustin @jimgar @jadeynryan @Drmowinckels

rmflight,
@rmflight@mastodon.social avatar

@jadeynryan @ataustin @jimgar @Drmowinckels

Here is the repo with the various bits. Used the hexsticker package, and then added the toad on top using gimp for the final image.

https://github.com/rmflight/quartoad/

meghansharris, to random
@meghansharris@fosstodon.org avatar

Excited for day 2 of talks at 😍 I may be wavering between feeling confident and some butterflies for my talk today 😅😂 Feel free to chat if you see me 😁

rmflight,
@rmflight@mastodon.social avatar

@meghansharris You'll do great! I always get butterflies before every presentation, even the internal ones within my org.

rmflight, to random
@rmflight@mastodon.social avatar

Unfortunately have to miss @Cmastication keynote: "It's Abstractions All the Way Down"

at due to cooking lunch for the fam, but looking forward to checking it out later (hopefully tomorrow sometime after the recording is in the conf portal).

gvwilson, to random
@gvwilson@mastodon.social avatar

Annie Lennox: "Why" https://www.youtube.com/watch?v=HG7I4oniOyA

rmflight,
@rmflight@mastodon.social avatar

@gvwilson good sir, why link to just the one track?! The whole album still slaps.

https://www.youtube.com/playlist?list=PLFBgfSAIU1-uPBVVBqYhGAActpgrgEah2

I just now looked it up and discovered that it was her debut album after the Eurythmics split.

rmflight, to random
@rmflight@mastodon.social avatar

PLOS-One has a survey about requiring code for publishing articles if you would like to leave feedback.

https://survey.alchemer.com/s3/7500690/Code-Sharing-Policy-Survey-2023-ONE

rmflight, to random
@rmflight@mastodon.social avatar

Anyone else overly amused that the first day of actual talks are on "talk like a pirate day"? 🤣

rmflight, to random
@rmflight@mastodon.social avatar

Was wondering why every iteration of my code was spitting out a message in this code:

if (iter %% 1000) {  
 message(...)  
}

Took forever to realize I wanted:

if ((iter %% 1000) == 0) {  
 message(...)  
}

🤦‍♂️

rmflight,
@rmflight@mastodon.social avatar

@hrbrmstr Ugh, that sucks.

I rarely use the modulo, so I'm chalking it up to that, hopefully.

Drmowinckels, to random
@Drmowinckels@fosstodon.org avatar

My EU-US socket adapter is not working, which is leading me to go to target for the first time. This might seem like a weird thing to be intrigued about, but "going to target" is so pervasive in social media I am curious to what this thing is. Also, I always enjoy going to local grocers and such when I travel, as I find the differences fascinating.

rmflight,
@rmflight@mastodon.social avatar

@Drmowinckels I'm not sure why Target is singled out on social media.

However, in my opinion it's mostly a more expensive version of WalMart. So generally a small grocery section, and then a large amount of clothing, a technology section (where hopefully you will find a new adapter), and toys and baby.

hrbrmstr, to random
@hrbrmstr@mastodon.social avatar

Nobody likes waiting, but some tasks are just slower than we would like them to be, and often they’re part of larger processes. So, today we queue up three tools — one of which groks GPUs — to help you manage ad hoc background execution.

Drop (2023-09-14):
The Commands We [Deliberately] Left Behind

— task-spooler;
— nq;
— pueue

Read/sub: https://open.substack.com/pub/hrbrmstr/p/drop-335-2023-09-14-the-commands?r=bffp&utm_medium=ios&utm_campaign=post

rmflight,
@rmflight@mastodon.social avatar

@hrbrmstr All of these look extremely, extremely useful.

I've had some targets workflows where the multiprocessing dies across various targets, which means that I probably need to run them independently, or semi-sequentially, and being able to just queue them up like some of these examples would be so nice.

I've had other things recently where these would have been very useful too.

tladeras, to random

7551 tweets. I'm slowly deleting all my tweets from my twitter account.

They are all archived here: https://laderast.github.io/tweets/

Here's a perennial favorite about presenting information: https://laderast.github.io/tweets/1357825161035096064/

rmflight,
@rmflight@mastodon.social avatar

@amelia @hrbrmstr @tladeras I've seen many who claimed to "delete their tweets" have them reappear on the site, so at some point they definitely decided they were not actually removing anything from the database.

Whether that's always been the case, or just since Musk took over, I'd bet always, and the engineering issues that have come up have meant things reappear on the site.

adamhsparks, to random

I don't know why I still bother with CRAN. Habit I suppose? I submitted a package that had some fixes that should have made CRAN happier (even though they'd not been flagged yet) only to get knocked back about an "issue" that wasn't the result of any change and has never been an issue before and didn't show up in any local, WinBuilder or RHub tests. I guess the new release will just exist on GitHub.

rmflight,
@rmflight@mastodon.social avatar

@adamhsparks @hrbrmstr that's part of the nice bits of r-universe! Compilation on Mac and windows, and the install instructions still use install.packages

rmflight,
@rmflight@mastodon.social avatar

@adamhsparks @hrbrmstr sort of, each one can be used as an extra repo source,

I have a package on there with it documented to use r-universe

https://moseleybioinformaticslab.r-universe.dev/ICIKendallTau

rmflight,
@rmflight@mastodon.social avatar

@hrbrmstr @mccarthymg @adamhsparks I took all week off this week due to our entire family coming down with COVID last week, so I might have time ...

I might also be sleeping.

rmflight,
@rmflight@mastodon.social avatar

@hrbrmstr I think we are doing OK, thankfully. Or seem to be. 7 days post 13 starting with it, and he is pretty much back to normal, not even a sniffle, and he is eating normally again.

Me, at only 4 days since starting with symptoms, I break out in a sweat if I go upstairs too fast.

I seriously don't know why people put themselves at risk over and over again by not wearing masks.

BigAngBlack, to foss
@BigAngBlack@fosstodon.org avatar

All you people out there, whose got recommendations for free, no-BS, no income limit software/services for us cursed with US ?

I know its another 6+ months away but would be great to prepare for now.
Or, maybe those who got the skills or know US tax law could make something

rmflight,
@rmflight@mastodon.social avatar

@BigAngBlack I know it's not quite what you asked for, but after a few years using Jackson Hewitt online, and looking at the recommendations on the r/personalfinance subreddit, I used https://www.freetaxusa.com/.

It really is free if you just want to do federal, and then the state is about the same cost as what other places seem to charge.

I look forward to the day when the IRS has it's own software, or USA tax rules can be parsed well enough to have a solution.

rebeccawatson, to random
@rebeccawatson@mstdn.social avatar

A new study has some sobering data about how COVID-19 affects people up to two years after infection, even for mild cases: heart problems, blood clots, diabetes, neurologic complications, fatigue, difficulties with mental health, and much more https://skepchick.org/2023/08/study-why-you-should-avoid-covid-even-if-youre-healthy/

rmflight,
@rmflight@mastodon.social avatar

@rebeccawatson ugh. I have to do better at reading these things, and then keeping them mostly to myself, b/c my spouse and 13 both have general anxiety, and we finally caught COVID.

I want to be aware of these things, and knowing some of it helps the rest of the family be cautious, but man 13 freaked out when we told him his test was positive.

And I so wish society would come back to the idea of public health.

DataAngler, to datascience
@DataAngler@vis.social avatar

This is an excellent tutorial from @debruine on how to create a power simulation in and call the simulation n times with parameters in a dataframe. Which is so useful for wanting to check how power is affected by different aspects of study design

But I get messages in R that purrr::pmap_dfr are superseded, so are we supposed to switch to a different set of functions for passing a dataframe of parameters to a function?

rmflight,
@rmflight@mastodon.social avatar

@DataAngler @tanho @debruine

you should still be able to do:

purrr::pmap(...) |>  
dplyr::bind_rows()

Should give you the equivalent of purrr::pmap_dfr

rmflight, to random
@rmflight@mastodon.social avatar

I know it's at least 1/2 the talking, but I'm done with this trip, and so want to turn tail for home instead of my in-laws tomorrow.

One more week, and then maybe (big maybe) a stop at Lego Discovery center just outside DC on our way back home. We are all so tired, and another week is just going to add onto it.

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