Naupaka Zimmerman

Announcing Withdrawal of NSF Pathways to Enable Open-Source Ecosystems Proposal In September 2024, The Carpentries submitted a proposal to the U.S. National Science Foundation (NSF) Pathways to Enable Open-Source Ecosystems (POSE) Program. This project would position The Carpentr...

ICYMI: In September 2024, The Carpentries submitted a proposal for 1.5 million USD to the U.S. National Science Foundation (NSF) Pathways to Enable Open-Source Ecosystems (POSE) Program, and were extremely pleased to learn that the proposal was recommended for funding.

However...

So if Sanger capillary is the Greatest Generation (sequenced human genome primer walking uphill both ways thankyouverymuch), and AVITI is Gen alpha, does that make 454 Gen x or the millennials

Junior/Assistant Specialist - Koskella Lab - Department of Integrative Biology University of California, Berkeley is hiring. Apply now!

Know any soon to graduate or recently graduated postbac researchers interested in / with experience working with phages? We are hiring a junior specialist/research tech! Apply here: aprecruit.berkeley.edu/JPF04863 (start date more flexible than stated in ad!)

NSF Grant Termination Information Collection Form Please use this form to submit information identifying specific NSF grants that have been cancelled for any reason after January 20, 2025. We are tracking these grants to increase transparency, organize affected PIs, and facilitate responses, including via litigation. Please share the form as widely as possible with your networks. We are actively building a pipeline to organize these terminations and will soon have a tracker akin to our NIH grant tracker at https://airtable.com/appjhyo9NTvJLocRy/shrNto1NNp9eJlgpA WE WILL NOT DISCLOSE THE IDENTITY OF ANYONE WHO USES THIS FORM TO PROVIDE INFORMATION. We will keep your identity confidential. These resources are maintained by Noam Ross of rOpenSci and Scott Delaney of the Harvard T.H. Chan School of Public Health, with input and support from additional volunteers. For any questions, please contact Scott Delaney on Signal (sdelaney.84). THANK YOU FOR YOUR ASSISTANCE!

🚨Report your NSF grant terminations! 🚨

We are starting to collect information on NSF grant terminations to create a shared resource as we have for NIH. The more information we collect, the more we can organize, advocate, and fight back! Please share widely!

airtable.com/appGKlSVeXni...

Started a Theoretical Ecology starter pack. For from complete. Respond if you want to be added or removed.

go.bsky.app/PwpvZLb

Open Science and Open Source only with Diversity, Equity, Inclusion, and Accessibility Including all of humanity is and always will be at the heart of open science.

Open Science and Open Source only with Diversity, Equity, Inclusion and Accessibility.

Inclusion is essential to science, and science is only worthwhile if it lifts everyone up together.

ropensci.org/blog/2025/02... #OpenSource #OpenScience

Building Research Capacity of New Faculty in Biology (BRC-BIO)

Looks like the following programs in #NSF BIO have been 'archived':
BRC-BIO - new.nsf.gov/funding/oppo...
BIO-LEAPS - new.nsf.gov/funding/oppo...
PRFB - new.nsf.gov/funding/oppo...

GitHub - ropensci/rix: Reproducible Data Science environments for R with Nix Reproducible Data Science environments for R with Nix - ropensci/rix

{rix} is an R package that leverages Nix, a package manager focused on reproducible builds. With Nix, you can create project-specific environments with a custom version of R, its packages, and all system dependencies (e.g., GDAL).

github.com/ropensci/rix

Happy New Year! 🎉

A new year means a lot of uncertainty. However, one thing remains certain: each month, we will continue to bring you awesome resources and relevant news via our newsletter! 🧵#ECEnewsletter

Extinction of experience among ecologists Fieldwork-based research and education in ecology are under multiple threats and are progressively declining. We call for greater attention to this ongoing loss of direct field experience within the ecology community, as it could have widespread consequences for science and education, ultimately hindering efforts to address the ongoing biodiversity crisis.

Where are all the field studies?

This ⬇️ important but rather depressing paper describes how conducting, & crucially initiating, field studies is becoming harder & rarer.

A short 🧵 (and a call for more fieldwork)
www.cell.com/trends/ecolo...

🎨 In case anyone need…

The NIH BioArt Source is an awesome library of *free* professionally drawn illustrations for scientific presentations or figures. Downloadable in HD. Thank you NIH for this invaluable tool 🙏!

Check it out 👇
bioart.niaid.nih.gov

An example of the raincloud using the iris data set

Today I learned that combining a density plot with a jitter / dot plot is called a "raincloud" plot. And also discovered the {ggrain} package. Very nice, I remember doing it almost by hand in base R. #rstats www.njudd.com/raincloud-gg...

Hi #rstats Twitter. Since many of you were on other platforms for a while, wanted to share that we have been busy building Tidier.jl for #JuliaLang.

The goal? All of tidyverse, written in 100% Julia.

Check it out: tidierorg.github.io/Tidier.jl/dev/

JuliaCon 2023 intro: youtu.be/ZVvP7rAIvkE?...

fluxfinder: An R Package for Reproducible Calculation and Initial Processing of Greenhouse Gas Fluxes From Static Chamber Measurements fluxfinder is a highly adaptable R package designed to calculate greenhouse gas fluxes The package allows users to parse gas analyzer data files, match data and metadata, compute fluxes, and gene...

My postdoctoral colleague 🙌 Stephanie Wilson of SERC led this great #rstats package paper — fluxfinder: An R Package for Reproducible Calculation and Initial Processing of Greenhouse Gas Fluxes From Static Chamber Measurements agupubs.onlinelibrary.wiley.com/doi/10.1029/...

Introducing the {messy} package | Nicola Rennie The {messy} R package takes a clean dataset, and randomly adds mess to create data more similar to that which you'd find in the real world. This is an easy way for educators to create data sets that g...

'The {messy} R package takes a clean dataset, and randomly adds these features of real datasets in - giving students the opportunity to practice their data cleaning and wrangling skills without educators having to change all of their examples.' nrennie.rbind.io/blog/introdu...

The strain on scientific publishing: we set out to characterise the remarkable growth of the scientific literature in the last few years, in spite of declining growth in total scientists. What is going on?

direct.mit.edu/qss/article/...

A 🧵 1/n
#AcademicSky #PhDchat #ScientificPublishing #SciPub

Three must read papers for PhD students. #scisky #PhD #science #research #academicsky

1. The importance of stupidity in scientific research

Open Access
journals.biologists.com/jcs/article/...

Hyperspectral reflectance integrates key traits for predicting leaf metabolism Click on the article title to read more.

Why does hyperspectral reflectance work for tracking plant physiological dynamics?

I recently wrote a commentary for @newphyt.bsky.social about that, targeted for a broad audience of plant scientists 🍃🌈🧪

nph.onlinelibrary.wiley.com/doi/10.1111/...

Starter packs BIOLOGY Ecology Macroecology https://go.bsky.app/GBn9pNZ Global ecology https://go.bsky.app/V6tN4cv Trait based ecology and evolution https://go.bsky.app/PThMXeX Invasion biology https://go.b...

hey everyone! i made a list of some useful starter packs (primarily biology/earth sciences with a few bonus things thrown in) to share with friends who have joined bsky in the last week and thought it may be useful for some people here too! 🌍🧪 #SciSky #BioSky docs.google.com/document/d/1...

Pleased to share the latest version of my paper with Arthur Spirling and @lexipalmer.bsky.social on replication using LMs

We show:

1. current applications of LMs in political science research *don't* meet basic standards of reproducibility...

🌱 🦠 🔬 Job -- Assistant Professor of Practice in Biotechnology and Plant and Microbial Sciences at University of Arizona arizona.csod.com/ux/ats/caree...

GasanalyzeR: advancing reproducible research using a new R package for photosynthesis data workflows GasanalyzeR, a new software tool, helps analyse data related to photosynthesis to achieve consistent and reproducible results. Many physiologically relevan

♻️GasanalyzeR: advancing reproducible research using a new R package for photosynthesis data workflows by Danny Tholen and co-authors

Full #openaccess
👉 https://buff.ly/4c92gx2

#PlantScience

We’re excited to advertise the Microbial Friends and Foes REU program! Please share info with your undergrads, for 10 weeks paid research experience at Cornell. Apps due on Feb 1. @heatherfeaga.bsky.social

cihmid.cornell.edu/academics-pr...

Starterpack of WoC and non-binary PoC in EcoEvo.
Specifically, those of us who are members of the #WoCinEEB slack community.
I'll keep adding people in the next few days.
Please let me know if I missed you!
Happy to provide info on how to join our community 💜

Please share! 🙏🏽
go.bsky.app/9iCneeT

Starter packs BIOLOGY General Science community https://go.bsky.app/HVYAMEA Research Institutions in Life Sciences https://go.bsky.app/LxXpcvJ LGBTQIA+ in STEM https://go.bsky.app/BFc4wgf LGBTQIA+ in STEM 2 h...

Thank you so much to whoever put this very comprehensive list of #science Bsky starter packs together. This is just amazing: docs.google.com/document/d/1...

A screenshot of first 5 videos of a molecular biology YouTube Playlist: 1) PCR, 2) Gel, 3) Restriction Enzymes, 4) Plasmid, 5) Gibson assembly.

I have a YouTube playlist (10 videos) for #MolecularBiology for my undergrad interns in the lab.

www.youtube.com/playlist?lis...

I usually have my interns watch these videos to get introduced to the basic concepts before I go show them how to in the lab.

PUIScienceSlack I had a little bit of a rough women in science day Thursday. I turned to Twitter for some support: It turns out quite a few people, and not just people who identify as women, do want to chat about …

Obligatory plug for PUI science slack. Many of us very happy to take questions from students and PDs about PUI jobs ranging from elite slacs to branch regionals

wright-lab.com/2020/02/02/p...

Scientists, academics, researchers: We’re excited to share that @altmetric.com is now tracking mentions of your research on Bluesky! 🧪

I created this stater pack with women in ecology and evolution.
If you want to be added you can comment or DM me, but also please suggest the names of those I am missing 🧪🌎🌐

go.bsky.app/8jFH7cS