Get ready for deep-ocean oxidation dates, no giant impact for Jupiter’s core, common meds making antibiotic resistance worse, arsenic-mineralizing marine worms, the July 2025 Top 40 new CRAN packages, a plea for PyPAN: the Python Package Archive Network, and a grant on aging mammalian tissues in vitro. Science On.

References:

• Mid-Devonian ocean oxygenation enabled the expansion of animals into deeper-water habitats
• No dilute core produced in simulations of giant impacts on to Jupiter
• The effect of commonly used non-antibiotic medications on antimicrobial resistance development in Escherichia coli
• A deep-sea hydrothermal vent worm detoxifies arsenic and sulfur by intracellular biomineralization of orpiment (As2S3)
• July 2025 Top 40 New CRAN Packages
• How many parameters does GPT-5 have?
• Python needs its CRAN
• The European Bioconductor Conference
• NIH: Aging Mammalian Tissues In Vitro
• NIH: Stephen I. Katz Early Stage Investigator Research Project Grant (non-clinical trial)
• NIH: Stephen I. Katz Early Stage Investigator Research Project Grant (human subjects)

R Packages:

• ham: Healthcare Analysis Methods
• multideploy: Deploy File Changes Across Multiple 'GitHub' Repositories
• SampleSizeCalculator: Sample Size Calculator under Complex Survey Design
• tidypopgen: Tidy Population Genetics
• mlspatial: Machine Learning and Mapping for Spatial Epidemiology
• gwas2crispr: GWAS-to-CRISPR Data Pipeline for High-Throughput SNP Target Extraction
• ggdiceplot: Dice Plot Visualization for 'ggplot2'

Get ready for a potential cancer vaccine, a carbon ring stabilized by smaller rings, Uranus’ newest tiny moon, absurd conversions in R, and funding from the American Lung Association. Science On.

References:

• Sensitization of tumours to immunotherapy by boosting early type-I interferon responses enables epitope spreading
• Solution-phase stabilization of a cyclocarbon by catenane formation
• SwRI-led Webb Telescope survey discovers new moon orbiting Uranus
• Python Developers Survey 2024 Results
• Handling Missing Data in R: A Comprehensive Guide
• Learning Antimicrobial Resistance (AMR) genes with Bioconductor
• Little useless-useful R functions – Absurd converter with Markdown report
• American Lung Association: Awards and Grants Opportunities

R Packages:

• Nematode: Ecological Indices Calculator for Nematode Communities
• confidenceCurves: Frequentist Confidence Analysis for Clinical Trials
• ggdiagram: Object-Oriented Diagram Plots with 'ggplot2'
• csdb: An Abstracted System for Easily Working with Databases with Large Datasets
• gtregression: Tools for Creating Publication-Ready Regression Tables

Get ready for Antarctic submarine canyons, a medicated gel for diabetic wound healing, rapid electronic detection of infectious and chronic diseases, SAS and R in tandem, and several grants from private foundations. Science On.

References:

The geomorphometry of Antarctic submarine canyons

Engineered sEVs encapsulated in GelMA facilitated diabetic wound healing by promoting angiogenesis via targeting thrombospondin-1

Nanoparticle-Supported, Rapid, and Electronic Detection of SARS-CoV-2 Antibodies and Antigens at the Subfemtomolar Level

Building seamless data pipelines across multiple languages: A life sciences and healthcare use case leveraging R and SAS

Gateway for Cancer Research Grant Program

IAFNS Cognitive Health Committee Request for Proposals

Simons Collaborations in Ecology and Evolution

Get ready for the power of iNaturalist in biodiversity research, mechanisms behind lightning strikes, multi-region brain organoids, programmable chromosome engineering, an idealized double-slit experiment, why hardware may need a new foundation, animated maps in R, and a grant from PepsiCo on novel proteins. Science On.

• References:
• iNaturalist accelerates biodiversity research
• Photoelectric Effect in Air Explains Lightning Initiation and Terrestrial Gamma Ray Flashes
• Multi-Region Brain Organoids Integrating Cerebral, Mid-Hindbrain, and Endothelial Systems
• Iterative recombinase technologies for efficient and precise genome engineering across kilobase to megabase scales
• Inhibition of the minor spliceosome restricts the growth of a broad spectrum of cancers
• Coherent and Incoherent Light Scattering by Single-Atom Wave Packets
• Einstein was wrong: MIT just settled a 100-year quantum debate
• Surfactants Steer Supraparticle Structure
• Journal of Statistical Software Volume 113
• Why Hardware Needs a New Foundation
• 3 ways to estimate parameters when fitting a distribution to data
• Introduction to Generalised Linear Models with Prussian Horse Kicks
• Animated Maps with {ggplot2} and {gganimate}
• Novel proteins, peptides and amino acids with health benefits

Get ready for radiation-hardened data chips, a universal Deepfake detector, plant virus cancer immunotherapy, June’s top 40 new CRAN packages, and a grant from the NSF on Future Computing Research. Science On.

References:

• A Radiation-Hard 8-Channel 15-Bit 40-MSPS ADC for the ATLAS Liquid Argon Calorimeter Readout
• Towards a Universal Synthetic Video Detector: From Face or Background Manipulations to Fully AI-Generated Content
• Comparative analyses for plant virus-based cancer immunotherapy drug development
• June 2025 Top 40 New CRAN Packages
• NSF Computer and Information Science and Engineering (CISE): Future Computing Research

R Packages:

• ggdibbler: Add Uncertainty to Data Visualisations
• simIC: Simulate and Analyze Interval- and Mixed-Censored Survival Data
• suRface.analytics: Statistical Analysis and Visualization of Surface-Engineered Material Properties
• staninside: Facilitating the Use of 'Stan' Within Packages
• ggcorrheatmap: Make Flexible 'ggplot2' Correlation Heatmaps

Get ready for cancer cells going up in sugary flames, live-action planetary formation, deep sea plastic biodegradation, a 150-year-old museum fossil specimen finally gets figured out, The R Journal: Volume 16/4, dealing with non-values in R, and some Science Spotlights. Science On.

References:

• A Novel Exopolysaccharide, Highly Prevalent in Marine Spongiibacter, Triggers Pyroptosis to Exhibit Potent Anticancer Effects
• LiDO: Discovery of a 10:1 Resonator with a Novel Libration State
• Refractory solid condensation detected in an embedded protoplanetary disk
• Unveiling deep-sea biodegradation of microbially produced lactate-based polyester (LAHB) via plastisphere metagenomics and metatranscriptomics
• Palaeocampa anthrax, an armored freshwater lobopodian with chemical defenses from the Carboniferous
• The R Journal: Volume 16/4
• Let’s talk about NA-s!
• What is Biological Dark Matter?
• What Makes Functional Precision Cancer Therapy Useful?

R Packages:

• dependentsimr: Simulate Omics-Scale Data with Dependency
• ROCnGO: Fast Analysis of ROC Curves

Get ready for Parkinson’s disease sniffing dogs; the bladed microtube scheme for massive magnetic fields; a giant, spinning black hole merger; ghost galaxies; lasagna plots in SAS; and an NSF grant on Programmable Cloud Laboratories. Science On.

References:

• Trained dogs can detect the odor of Parkinson's disease
• Gigagauss magnetic field generation by bladed microtube implosion
• Dynamic Organization of Cells in Colonic Epithelium is Encoded by Five Biological Rules
• GW231123: a Binary Black Hole Merger with Total Mass 190-265
• Encoding hierarchical 3D architecture through inverse design of programmable bonds
• 100 ghost galaxies may be orbiting the Milky Way—and we’re just now uncovering them
• Journal of Statistical Software Volume 113
• Use a lasagna plot to visualize US gas prices
• Exploring R and Rust in Bioinformatics – Online Developer Forum, 28 July 2025
• How to choose an IDE
• Standard Deviation vs. Standard Error: Meaning, Misuse, and the Math Behind the Confusion
• NSF Test Bed: Toward a Network of Programmable Cloud Laboratories
• NASA ROSES 2025: F.9 Citizen Science Seed Funding Program

R Packages:

• rfriend: Provides Batch Functions and Visualisation for Basic Statistical Procedures
• clusterWebApp: Universal Clustering Analysis Platform
• fusedTree: Fused Partitioned Regression for Clinical and Omics Data
• ironseed: Improved Random Number Generator Seeding
• junco: Create Common Tables and Listings Used in Clinical Trials
• ggtranslate: A 'ggplot2' Extension for Translating Plot Text

Get ready for Big Five Workouts, CryoRhodopsins, double detonation supernovae, moon-rice, the 4 layers of testing for R packages, and a three-track grant from the NSF on Translation to Practice. Science On.

References:

• Personality traits can predict which exercise intensities we enjoy most, and the magnitude of stress reduction experienced following a training program
• CryoRhodopsins: A comprehensive characterization of a group of microbial rhodopsins from cold environments
• The genome of a sea spider corroborates a shared Hox cluster motif in arthropods with a reduced posterior tagma
• Regulating Multifunctional Oxygen Vacancies for Plasma-Driven Air-to-Ammonia Conversion
• Calcium in a supernova remnant as a fingerprint of a sub-Chandrasekhar-mass explosion
• Restoration of striatal neuroprotective pathways by kinase inhibitor treatment of Parkinson’s disease–linked LRRK2-mutant mice
• Moon-Rice: Developing the perfect crop for space-bases
• The 4 Layers of Testing Every R Package Needs
• Elevate Your Skills and Boost Your Career with Jumping Rivers Free Monthly Webinars
• NSF: National Science Foundation Translation to Practice

R Packages:

• BMIselect: Bayesian MI-LASSO for Variable Selection on Multiply-Imputed Datasets
• gggda: A 'ggplot2' Extension for Geometric Data Analysis
• reptiledbr: Interface to the Reptile Database for Querying and Retrieving Taxonomic Data
• semEffect: Structural Equation Model Effect Analysis and Visualization

Get ready for cancer cell states, ADHD diagnosis difficulties, body profiles from Ediacaran trace fossils, LMMS for work you can do yourself, May 2025 Top 40 New CRAN Packages, and a Google Research grant for Quantum Neuroscience. This episode covers materials from June 27th to July 3rd. Science On.

References:

• AAnet resolves a continuum of spatially-localized cell states to unveil intratumoral heterogeneity
• Diagnosing ADHD in adults in randomized controlled studies: a scoping review
• Quantitative decoding of Ediacaran locomotory trace fossil morphologies: Evidence for the emergence of slender anterior-posterior body profiles
• Size-Insensitive Vapor Diffusion Enabled by Additive Freeze-Printed Aerogels for Scalable Desalination
• You can outsource the grunt work to an LLM, not expertise
• May 2025 Top 40 New CRAN Packages
• Beyond the Basics: Books to Supercharge Your R Skills
• DOD: Air Force Fiscal Year 2026 Young Investigator Program (YIP)
• NASA: Innovative Advanced Concepts (NIAC) Phase I
• Google Research: Quantum Neuroscience

R Packages:

• autograph: Automatic Plotting of Many Graphs
• gemR: General Effect Modelling

Get ready for UV-resistant lichen, microbes for bioprinting Martian regolith, a new mammalian organelle called the hemifusome, and ways to make candlestick and segmented total bar charts in R. Science On.

References:

• UVC-Intense Exoplanets May Not Be Uninhabitable: Evidence from a Desert Lichen
• Bio-Manufacturing of Engineered Living Materials for Martian Construction: Design of the Synthetic Community
• Lineage-resolved analysis of embryonic gene expression evolution in C. elegans and C. briggsae
• Hemifusomes and interacting proteolipid nanodroplets mediate multi-vesicular body formation
• Anatomy of a Normal Probability Plot
• How to draw a candlestick chart in R? – Both ggplot2 and plotly
• Segmented Total Bar Chart in R with “`ggsegmentedtotalbar“`
• Fantastic Graph Types and How to Make Them

R Packages:

• clinpubr: Clinical Publication
• slopes: Calculate Slopes of Roads, Rivers and Trajectories
• unsum: Reconstruct Raw Data from Summary Statistics