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Science Research Weekly

Science Research Weekly

By Mark R Williamson

A weekly overview of helpful scientific research topics and the successor of the podcast Statistics Weekly. Every week, I will cover 3 topic areas: Research Articles, Research Tools, and Research Funding. Science On.
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Episode 1: Getting a Flat Distribution Under Us

Science Research WeeklyApr 01, 2022

00:00
07:39
Episode 20: Tintin and the Rare-Earth Elements
Jun 02, 202307:53
Episode 19: Small Things Considered

Episode 19: Small Things Considered

Get ready for non-natural amino acids, screwdriver-toothed mosasaurs, bubble-powered microbots, SAS Hackathon breakthroughs, Amazing Biochemistry Project Topics, and funding support from a little giraffe. Science On.


References:

A platform for distributed production of synthetic nitrated proteins in live bacteria Stelladens mysteriosus: A Strange New Mosasaurid (Squamata) from the Maastrichtian (Late Cretaceous) of Morocco High-throughput printing of combinatorial materials from aerosols Bubble-Based Microrobots with Rapid Circular Motions for Epithelial Pinning and Drug Delivery Generic Air-Gen Effect in Nanoporous Materials for Sustainable Energy Harvesting from Air Humidity Macromolecular Engineering: From Precise Macromolecular Inks to 3D Printed Microstructures Python 3.12.0 beta 1 released How does PROC SGPLOT position labels for polygons? Unleashing brilliance: 3 innovative solutions to real-world problems at the SAS Hackathon the difference between clustered, longitudinal, and repeated measures data 35+ Amazing Biochemistry Project Topics To Boost Your Skills Why learning Python is hard (but important) for Data Scientists that use R R Consortium-Funded R Package “matter” Helps Solve Larger-Than-Memory Issues GitHub: rembg NSF: Geoinformatics DOD: Neurofibromatosis New Investigator Award 2023 Neonatal Research Initiative - Request for Proposals Hirshberg Foundation Seed Grant Program 2023 Kaggle AI Report HuBMAP - Hacking the Human Vasculature


R packages:

BIDistances: Bioinformatic Distances cstidy: Helpful Functions for Cleaning Surveillance Data ggautomap: Create Maps from a Column of Place Names JUMP: Replicability Analysis of High-Throughput Experiments
May 26, 202308:32
Episode 18: DNA, DNA Everywhere
May 19, 202306:16
Episode 17: Regressing towards the Mean
May 12, 202306:56
Episode 16: Guardians of the Genome
May 05, 202308:31
Episode 15: Buzzing Across the Pond

Episode 15: Buzzing Across the Pond

Get ready for jetting black holes, cancer diagnosis with a strip of paper, the mysterious world of freshwater acoustics, frontiers in fungal biotechnology, transcribing/translating audio with Buzz, and NSF infrastructure grants. Science On.


References:

A ring-like accretion structure in M87 connecting its black hole and jet Galaxy interactions are the dominant trigger for local type 2 quasars CRISPR-Cas-amplified urinary biomarkers for multiplexed and portable cancer diagnostics Simple optical nanomotion method for single-bacterium viability and antibiotic response testing Diel variation in insect-dominated temperate pond soundscapes and guidelines for survey design A versatile jellyfish-like robotic platform for effective underwater propulsion and manipulation Fungal biotechnology: From yesterday to tomorrow R 4.3.0 is released how to pick an r package GitHub: Buzz GitHub: tabby NIA: Small Research Grant for Next Gen. AD/ADRD Research NSF: Infrastructure Capacity for Biological Research NSF: Infrastructure Innovation for Biological Research HFSP: Long-Term Fellowships CAP: Global Pathology Development Grant


R-packages:

jmBIG: Joint Longitudinal and Survival Model for Big Data mlmpower: Power Analysis and Data Simulation for Multilevel Models gtranslate: Translate Between Different Languages mldr.resampling: Resampling Algorithms for Multi-Label Datasets geessbin: Modified Generalized Estimating Equations for Binary Outcome survivalSL: Super Learner for Survival Prediction from Censored Data
Apr 28, 202307:56
Episode 14: Of Space Rats and Shiny Apps
Apr 21, 202305:11
Episode 13: Crazy Ants, Crazier Viruses
Apr 14, 202305:45
Episode 12: Snowstorms and Dolphins
Apr 07, 202306:20
Episode 11: Cue the Sci-Fi Dystopia Film Score

Episode 11: Cue the Sci-Fi Dystopia Film Score

Get ready for atomic nuclei views, artificial organelles, AI article generation, PyCon, Simpson's paradox, building your favorite technologies from scratch, and funding to maintain ENCODE. Science On.


References:

Genome-wide subcellular protein map for the flagellate parasite Trypanosoma brucei Artificial organelles for sustainable chemical energy conversion and production in artificial cells: Artificial mitochondrion and chloroplasts Tomography of ultrarelativistic nuclei with polarized photon-gluon collisions Core cellular and tissue-specific mechanisms enable desiccation tolerance in Craterostigma Chatting and cheating: Ensuring academic integrity in the era of ChatGPT Journal of Statistical Software Volume 106 Quick PyCon US Update JuliaHub & Julia Ranked #12 in the Debut of Redpoint’s Open-source Top 25 Simpson's paradox and confounding variables 15+ Awesome Javascript Projects For Beginners In 2023 February 2023: “Top 40” New CRAN Packages REDCapDM: a package to access and manage REDCap data Top five(ish) sources of ecological data Build your own X DOD: Young Investigator Program NHGRI: Maintenance and Integration of the ENCODE Data Resource NIDCR: Research Grants for Analyses of Existing Genomics Data NIDCR: Small Research Grants for Analyses of Existing Genomics Data


R Packages:

lenght: Allow Misspellings of Length Function c2z: A Reference Manager ecan: Ecological Analysis and Visualization Vicus: Exploiting Local Structures to Improve Network-Based Analysis of Biological Data
Mar 31, 202311:17
Episode 10: Sticks and Cones May Break My Bones

Episode 10: Sticks and Cones May Break My Bones

Get ready for super microscopes, tardigrade blood stabilization, broken stick modeling, an R version codenamed ‘Already Tomorrow’, a ‘pinecone’ made of Python, and a pitch-style competition for infectious disease funding. Science On.


References:

Parallelized computational 3D video microscopy of freely moving organisms at multiple gigapixels per second Natural and engineered mediators of desiccation tolerance stabilize Human Blood Clotting Factor VIII in a dry state Hyperactive nanobacteria with host-dependent traits pervade Omnitrophota Electrochemical degradation of PFOA and its common alternatives: Assessment of key parameters, roles of active species, and transformation pathway Mother-to-infant microbiota transmission and infant microbiota development across multiple body sites Journal of Statistical Software Volume 106 R 4.3.0 scheduled for April 21 dummy coding in spss glm–more on fixed factors, covariates, and reference groups Partial correlation: controlling for confounding variables Pynecone A suite of tools to scrape and parse search engine results NIH: Molecular Transducers of Physical Activity Bioinformatics Center NIH: Instrumentation Grant Program for Resource-Limited Institutions NSF: Synthesis Center for Understanding Organismal Resilience ACS: Postdoctoral Fellowships HFSP: Cross-Disciplinary Fellowships IDSA: IDea Incubator

R Packages:

crayons: Color Palettes from Crayon Boxes baseq: Basic Sequence Processing Tool for Biological Data reappraised: Statistical Tools for Assessing Publication Integrity of Groups of Trials ridgregextra: Ridge Regression Parameter Estimation
Mar 24, 202310:23
Episode 9: Robot Parade!

Episode 9: Robot Parade!

Get ready for self-healing soft robots, modular NASA robots, Shiny recaps, Statistical Rethinking training, statistical kindergarten, and the NIH Pioneer Award Program. Science On.

References:

Optical tweezers throw and catch single atoms The connectome of an insect brain A hydrogenotrophic Sulfurimonas is globally abundant in deep-sea oxygen-saturated hydrothermal plumes A self-healing electrically conductive organogel composite Engineering breakthrough in softbotics Mix-and-match kit could enable astronauts to build a menagerie of lunar exploration bots The Young Supernova Experiment Data Release 1 (YSE DR1) Observation of a critical charge mode in a strange metal 6 predictions for AI and data in health care and life sciences Use the metalog distribution in SAS R 4.2.3 is released ShinyConf 2022 – Short Recap Statistical Rethinking (2023 Edition) Introduction to data analysis with {Statgarten}. WebR IS HERE! NIH: Director’s Pioneer Award Program NIH: Entry-Level Modules for Training the Genomics Research Workforce NIH: Enhancement of external environmental exposure assessment for cancer epidemiology research Falk Medical Research Trust: Catalyst Awards Program CRI: Immuno-Informatics Postdoctoral Fellowship ACS: Early Career Postdoctoral-Faculty Bridge Grant

Other Articles:

LEXpander: Applying colexification networks to automated lexicon expansion Surface changes observed on a Venusian volcano during the Magellan mission Why is Pumas-QSP So Fast? Some Insights Into Differentiable Simulation Performance

R-packages:

pharmaverse: Navigate 'Pharmaverse' toweranNA: A Method for Handling Missing Values in Prediction Applications waspasR: Tool Kit to Implement a W.A.S.P.A.S. Based Multi-Criteria Decision Analysis Solution
Mar 17, 202309:36
Episode 8: Flash Grants in the Pan

Episode 8: Flash Grants in the Pan

Get ready for technological tribology, tingible translational cell biology, flipping fossils, Volume 14/4 of the R Journal, ebook tips and tricks, and flash grants to fixate on.  Science On.

References:

Novel friction stabilization technology for surface damage conditions using machine learning Crevasse refreezing and signatures of retreat observed at Kamb Ice Stream grounding zone Apoptotic cell fragments locally activate tingible body macrophages in the germinal center Dynamic interplay between RPL3- and RPL3L-containing ribosomes modulates mitochondrial activity in the mammalian heart An abundant sea anemone from the Carboniferous Mazon Creek Lagerstӓtte, USA Paleontologists flip the script on anemone fossils Python 3.12.0 alpha 6 released The R Journal Volume 14/4 7 New books added to Big Book of R What I’ve learned making an .epub Ebook with Quarto DOD: DEPSoR - Research Collaboration DOD: Ovarian Cancer CTR Award DOD: Ovarian Cancer Clinical Trial Award NHBLI: Research Project Grants in Valvular Heart Disease NHBLI: Integrative Omics Analysis of NHLBI TOPMed Data HHS: Small R01s for Clinical Trials Targeting Diseases for NIDDK Biogen: Sponsorships AHR: Strategically Focused Research Networks CRI: Technology Impact Award IAFNS: Live Dietary Microbe Intake and Health Outcomes NC Life Sciences: Flash Grants

R-packages:

BayesFluxR: Implementation of Bayesian Neural Networks lorem: Generate Lorem Ipsum Text HDRFA: High-Dimensional Robust Factor Analysis guildai: Track Machine Learning Experiments aihuman: Experimental Evaluation of Algorithm-Assisted Human Decision-Making
Mar 10, 202310:22
Episode 7: Life, the R-Universe, and Everything

Episode 7: Life, the R-Universe, and Everything

Get ready for an exploration of the R-Universe, simulated octopus tentacles, effects of Vitamin D and exercise on health, fossil wings and fins, statistical conferences to set your calendar by, and a very special 23rd birthday.  Science On.

References:

Energy-shaping control of a muscular octopus arm moving in three dimensions Injury primes mutation-bearing astrocytes for dedifferentiation in later life Origin of the propatagium in non-avian dinosaurs Effectiveness of physical activity interventions for improving depression, anxiety and distress: an overview of systematic reviews MoBIE: a Fiji plugin for sharing and exploration of multi-modal cloud-hosted big image data 3D printing of living structural biocomposites Network expansion of genetic associations defines a pleiotropy map of human cell biology A shape-shifting nuclease unravels structured RNA Systematics and Phylogenetic Interrelationships of the Enigmatic Late Jurassic Shark Protospinax annectans Woodward Vitamin D supplementation and incident dementia: Effects of sex, APOE, and baseline cognitive status JuliaHub Newsletter February 2023 Bioconductor Conference 2023 PhyloPic R 4.2.3 R-universe January 2023: “Top 40” New CRAN Packages Happy 23rd Birthday R! NIH: Translational Research in Maternal and Pediatric Pharmacology and Therapeutics (R01) NIH: Translational Research in Maternal and Pediatric Pharmacology and Therapeutics (R21) NIH: Genomic Community Resources (U24) CDC: Clinical and Applied Research Strategies for the Prevention and Control of Fungal Diseases USDA: USDA-ARS Postdoctoral Fellowship in Spatial Statistics for Continental-Scale Soil Health Modeling TSC Alliance: 2023 Grant Cycle CHEST: COPD Research Grant CHEST: Young Investigator Research Grant

R-packages:

aihuman: Experimental Evaluation of Algorithm-Assisted Human Decision-Making reactCheckbox: Checkbox Group Input for 'Shiny' treediff: Testing Differences Between Families of Trees rutledge: Real-Time PCR Data Sets by Rutledge et al. (2004)
Mar 03, 202311:07
Episode 6: Boss-Level Antibiotics

Episode 6: Boss-Level Antibiotics

Get ready for better arsenic detection, broad-spectrum antibiotics, model-breaking massive galaxies, Julia and Python working in harmony, a hard-to-pronounce R-package on Gaussian mixture models, and Department of Defense lung cancer grants aplenty.  Science On.

References:

Scalable selective absorber with quasiperiodic nanostructure for low-grade solar energy harvesting Toward surface-enhanced Raman scattering using electroless substrate for trace arsenic detection and speciation Site-specific encoding of photoactivity and photoreactivity into antibody fragments Complete Genome Sequence of the Lysogenic Pseudomonas Bacteriophage Fyn8 A broad-spectrum synthetic antibiotic that does not evoke bacterial resistance Discovery of massive early galaxies defies prior understanding of the universe Julia and Python better together DOD: Multidisciplinary Research Program of the University Research Initiative (MURI) DOD: Lung Cancer, Concept Award DOD: Lung Cancer, Translational Research Award DOD: Lung Cancer, Idea Development Award DOD: Lung Cancer, Career Development Award NASA: Early Career Faculty FDA: Natural History and Biomarker Studies of Rare Neurodegenerative Diseases LCRF: Leading Edge Research Grant Program UMDF: Research Grant Program

R-packages:

dataMojo: Reshape Data Table ggmapinset: Add Inset Panels to Maps bubbleHeatmap: Produces 'bubbleHeatmap' Plots for Visualising Metabolomics Data gmmsslm: Semi-Supervised Gaussian Mixture Model with a Missing-Data Mechanism rWCVP: Generating Summaries, Reports and Plots from the World Checklist of Vascular Plants
Feb 24, 202305:16
Episode 5: A Bouquet of Space ROSEs
Feb 17, 202306:12
Episode 4: To Err in R is Human
Feb 10, 202305:21
Episode 3: The Ocean that Snuck up on Me
Feb 03, 202305:40
Episode 2: What Double Teeth You Have
Jan 27, 202307:49
Episode 1: An Explosive Beginning

Episode 1: An Explosive Beginning

Welcome to Science Research Weekly, the successor to my first podcast, Statistics Weekly.  This abbreviated trial run of an episode includes: a research article on microbes from a volcanic island, the largest stellar catalogue to date, Arduino project ideas for 2023, and NSF Research and Development grants.

References:

The Early Microbial Colonizers of a Short-Lived Volcanic Island in the Kingdom of Tonga A high-quality Ixodes scapularis genome advances tick science Haplotype-aware pantranscriptome analyses using spliced pangenome graphs The molecular evolution of genes previously associated with large sizes reveals possible pathways to cetacean gigantism The Dark Energy Camera Plane Survey 2 (DECaPS2): More Sky, Less Bias, and Better Uncertainties Volume 105 of the Journal of Statistical Software 12 blog posts from 2022 that deserve a second look Top 15 Stunning Arduino Project Ideas For 2023 Some R Conferences for 2023 Web scraping in R Imputation in R: Top 3 Ways for Imputing Missing Data FDA: Fellowship in Understanding Pathogenesis and Improving Detection of Flaviviruses NSF: Future Manufacturing NSF: Division of Environmental Biology NSF: Division of Molecular and Cellular Biosciences Core Programs NSF: Division of Integrative Organismal Systems Core Programs NIH NOSI: Research on the Etiology, Early Detection, Screening and Prevention of Early-Onset Colorectal Cancer NIH NOSI: Computational and Statistical Methods to Enhance Discovery from Health Data

R packages:

ggplate: Create Layout Plots of Biological Culture Plates and Microplates glmmrOptim: Approximate Optimal Experimental Designs Using Generalised Linear Mixed Models shiny.benchmark: Benchmark the Performance of 'shiny' Applications blindreview: Blind Review Using Forward Search Procedures metabias: Meta-Analysis for Within-Study and/or Across-Study Biases evoTS: Analyses of Evolutionary Time-Series OssaNMA: Optimal Sample Size and Allocation with a Network Meta-Analysis
Jan 25, 202307:48
Science Research Weekly Trailer

Science Research Weekly Trailer

Welcome to Science Research Weekly.  This is the successor to my first podcast, Statistics Weekly.  Every week, I will cover 3 topic areas: Research Articles, Research Tools, and Research Funding.  Check out the accompanying blog at: https://scienceresearchweekly.wordpress.com/

Jan 24, 202300:60
Episode 40: The Close of 2022

Episode 40: The Close of 2022

Take the poll to weigh in on the future of Statistics Weekly.

Dec 30, 202201:01
Episode 39: Last Stat Before Christmas
Dec 23, 202204:58
Episode 38: Ho, Ho, Holiday Statistics Projects
Dec 16, 202206:28
Episode 37:  Hexadecimal Codes of Christmas

Episode 37: Hexadecimal Codes of Christmas

In this episode, I got into the spirit of Sinterklaas with Python, jumpstarted Julia learning, cleared up confusion between ANOVA and regression results, and color paletted the night away.

References:

Estimation of population variance under ranked set sampling method by using the ratio of supplementary information with study variable 10 Simple Reasons to Learn the Julia Programming Language (in 2023) Python 3.11.1, 3.10.9, 3.9.16, 3.8.16, 3.7.16, and 3.12.0 alpha 3 are now available Art in SAS: Christmas wrapping paper when the results of your anova table and regression coefficients disagree Select colours from an image in R with {eyedroppeR} How to make your own #RStats Wrapped!

R-packages:

HodgesTools: Common Use Tools for Genomic Analysis DependencyReviewer: Tool Suite to Investigate Other Packages gmvjoint: Joint Models of Survival and Multivariate Longitudinal Data r2social: App Inclusion of Social Sharing and Connect Buttons lterpalettefinder: Extract Color Palettes from Photos and Pick Official LTER Palettes jackknifeR: Jackknife Linear Regression and Correlation POMADE: Power for Meta-Analysis of Dependent Effects HTT: Hypothesis Testing Tree
Dec 09, 202205:39
Episode 36: Curb your Stats-thusiasm
Dec 02, 202205:36
Episode 35: Turkey v. Tukey
Nov 24, 202202:31
Episode 34: Genomics, My Dear Watson
Nov 18, 202206:17
Episode 33: Healthy Heaping of Free Stats
Nov 10, 202205:35
Episode 32: Spooky Scary Statistics
Nov 04, 202207:24
Episode 31: Awash in Acronyms
Oct 28, 202206:31
Episode 30: The GitHub Secret Sauce
Oct 21, 202206:06
Episode 29: Business or Bust

Episode 29: Business or Bust

In this episode, I contributed to the Python Developers Survey, wiped a sweaty brow over the Isoband Incident, and booted up package 'bupaverse' for business process analytics.

References:

The R Journal Volume 14/1 gsDesign 3.4.0 is released Improvements in handling bytes encoding Join the Python Developers Survey 2022: Share and learn about the community Who rotated my cookie?  CRAN and the Isoband Incident – Is Your Project at Risk and How to Fix It Map any region in the world with R – Part I: The basic map

R-packages:

dfms: Dynamic Factor Models precmed: Precision Medicine RobustANOVA: Robust One-Way ANOVA Tests under Heteroscedasticity and Nonnormality bakR: Analyze and Compare Nucleotide Recoding RNA Sequencing Datasets nestedmodels: Tidy Modelling for Nested Data powRICLPM: Perform Power Analysis for the Random Intercept Cross-Lagged Panel Model bupaverse: Easily Install and Load the 'bupaverse'
Oct 14, 202206:20
Episode 28:  Everything’s Coming Up Machine Learning
Oct 07, 202205:47
Episode 27: Statistical Models on the Quick
Sep 30, 202204:54
Episode 26: Random Learning on the Short

Episode 26: Random Learning on the Short

In this episode, I kept it short and sweet with a new statistical journal reference, data science job scraping, and random learning for R-packages.

References:

Generalized resilience and robust statistics Stochastic continuum-armed bandits with additive models: Minimax regrets and adaptive algorithm Generate random ID values for subjects in SAS Linear Regression Equation Explained An Example of Specifying Within-Subjects Factors in Repeated Measures Designing Online Data Science Training for the Modern Age Optimizing my search for Data scientist jobs by scraping Indeed with R Seeking Inspiration from Random Learning

R-packages:

BiOFI: Feature Identification Between Metabolome and Microbiome in Disease and Health glmmrBase: Specification of Generalised Linear Mixed Models REDCapTidieR: Extract 'REDCap' Databases into Tidy 'Tibble's verbaliseR: Make your Text Mighty Fine betaSandwich: Robust Confidence Intervals for Standardized Regression Coefficients DynForest: Random Forest with Multivariate Longitudinal Predictors roBTT: Robust Bayesian T-Test alqrfe: Adaptive Lasso Quantile Regression with Fixed Effects recurrentpseudo: Creates Pseudo-Observations and Analysis for Recurrent Event Data alkahest: Pre-Processing XY Data from Experimental Methods
Sep 23, 202204:01
Episode 25: Machine Learning vs. Magic

Episode 25: Machine Learning vs. Magic

In this episode, I found that Bambi (Bayesian Model Building Interface) is more than a little deer, rooted for the round-robin operator for genetic algorithms, and had my convictions that machine learning is not magic reinforced.

References:

HighFrequencyCovariance:  A Julia Package for Estimating Covariance Matrices Using High Frequency Financial Data Bambi: A Simple Interface for Fitting Bayesian Linear Models in Python Spbsampling: An R Package for Spatially Balanced Sampling plot3logit: Ternary Plots for Interpreting Trinomial Regression Models Learning Base R (2nd Edition) Python and R for the Modern Data Scientist Genetic algorithm with a new round-robin based tournament selection: Statistical properties analysis Healthcare researchers must be wary of misusing AI New method to identify symmetries in data using Bayesian statistics Python 3.11.0rc2 is now available Complex Layouts using the SG Procedures Factor Analysis Guide with an Example How to Choose Appropriate Clustering Method for Your Dataset How to Apply AI to Small Data Sets? The R Consortium Needs Your Help with satRdays Visualizing OLS Linear Regression Assumptions in R

R-packages:

TPCselect:  Variable Selection via Threshold Partial Correlation historicalborrow:  Non-Longitudinal Bayesian Historical Borrowing Models historicalborrowlong:  Longitudinal Bayesian Historical Borrowing Models kgp:  1000 Genomes Project Metadata DBIsqldf:  Manipulate R Data Frames Using SQL latentFactoR:  Data Simulation Based on Latent Factors TSdeeplearning:  Deep Learning Model for Time Series Forecasting
Sep 16, 202208:05
Episode 24: The Way of the R Warrior

Episode 24: The Way of the R Warrior

In this episode, I chose mediation analysis over a hospital heist, gained additional sample size calculation insights, memorized machine learning methods, and battled my way up a text-based tower using package ‘rwarrior’.

References:

Hierarchical Clustering with Contiguity Constraint in R Blang: Bayesian Declarative Modeling of General Data Structures and Inference via Algorithms Based on Distribution Continua Robust Mediation Analysis: The R Package robmed A Software Tool For Sparse Estimation Of A General Class Of High-dimensional GLMs bayesanova: An R package for Bayesian Inference in the Analysis of Variance via Markov Chain Monte Carlo in Gaussian Mixture Models blindrecalc - An R Package for Blinded Sample Size Recalculation Power and Sample Size for Longitudinal Models in R – The longpower Package and Shiny App RFpredInterval: An R Package for Prediction Intervals with Random Forests and Boosted Forests Alternative stopping rules to limit tree expansion for random forest models gMCPLite: Lightweight Graph Based Multiple Comparison Procedures pkglite 0.2.1 is released Python releases   3.10.7, 3.9.14, 3.8.14, and 3.7.14 are now available Ordinal Data: Definition, Examples & Analysis How the Population Distribution Influences the Confidence Interval Talks to watch at the RSS International Conference How to Avoid Overfitting? Beneath and Beyond the Cox Model (www.r-bloggers.com/2022/09/beneath-and-beyond-the-cox-model/) What are the algorithms used in machine learning? (www.r-bloggers.com/2022/09/what-are-the-algorithms-used-in-machine-learning/) 23 New books added to Big Book of R (www.r-bloggers.com/2022/09/23-new-books-added-to-big-book-of-r/) R Warrior Leader Board (www.r-bloggers.com/2022/08/r-warrior-leader-board/)

R-packages:

oceanexplorer: Explore Our Planet's Oceans with NOAA OneArm2stage: Optimal One-Arm Two-Stage Phase II Design with Survival Endpoint rwarrior: R Warrior - An AI Programming Game manymome: Mediation, Moderation and Moderated-Mediation After Model Fitting voice: Tools for Voice Analysis, Speaker Recognition and Mood Inference shinylight: Web Interface to 'R' Functions
Sep 09, 202210:09
Episode 23: Biting Off More Statistics Than I Can Chew
Sep 02, 202211:30
Episode 22: Python with a Side of Waffles

Episode 22: Python with a Side of Waffles

In this episode, I grabbed the tools to conduct mobility data analysis and interactive plots in Python, detected outliers in spherical data, considered the next programing language to learn, and readied the statistical syrup for waffle plots using package ‘baffle’.

References:

scikit-mobility: A Python Library for the Analysis, Generation, and Risk Assessment of Mobility Data spNNGP R Package for Nearest Neighbor Gaussian Process Models Feller-Pareto and Related Distributions: Numerical Implementation and Actuarial Applications A new outlier detection method for spherical data Confidence bands in survival analysis How to stagger labels on an axis in PROC SGPLOT Experimental Design: Definition and Types The Difference Between R-squared and Adjusted R-squared Top 5 Python Libraries for Data Science (2023) Edition Base-R and Tidyverse Code, Side-by-Side R Design Patterns, Base-R vs. Tidyverse With a view toward the teaching of R beginners Hello Shiny Python Which programming language should I learn? R Markdown Tips: Code, Images, Comments, Tables, and more Is Data Science a Dying Profession?

R-packages:

evalR Evaluation of Unverified Code goldfish Statistical Network Models for Dynamic Network Data baffle Make Waffle Plots with Base Graphics ggDoE Modern Graphs for Design of Experiments with 'ggplot2' jjAnno An Annotation Package for 'ggplot2' Output multinomialLogitMix Clustering Multinomial Count Data under the Presence of Covariates IntLIM Integration of Omics Data Using Linear Modeling scrutiny Error Detection in Science shinyHugePlot Efficient Plotting of Large-Sized Data ctmva Continuous-Time Multivariate Analysis ggcoverage Visualize Genome Coverage with Various Annotations
Aug 26, 202207:31
Episode 21: Behind the Statistical Software Curve
Aug 19, 202208:37
Episode 20:  The Count of Monte Carlo
Aug 12, 202205:44
Episode 19: Get Python Not Sleep
Aug 05, 202204:34
Episode 18: The Software Formerly Known as RStudio
Jul 29, 202207:53
Episode 17:  Tidal Waves of R Packages

Episode 17: Tidal Waves of R Packages

In this episode, I pared down three important -omics data considerations, coded my way into wave of new R packages, boasted about the Big Book of R, and havered over the ‘dots’ package.

References:

Editorial: Statistical Data Science - Theory and Applications in Analyzing Omics Data Introducing riskCommunicator: An R package to obtain interpretable effect estimates for public health On the mixed Kibria–Lukman estimator for the linear regression model Rejection Region (Critical Region) for Statistical Tests Join rstudio::conf(2022) Virtually ggdensity: A new R package for plotting high-density regions R Color Generalized Linear Models, Part I: The Logistic Model Part 1 of 3: 300+ milestone for Big Book of R Part 2 of 3: 300+ milestone for Big Book of R Part 3 of 3: 300+ milestone for Big Book of R

R-packages:

htmcglm:  Hypothesis Testing for McGLMs nextGenShinyApps:  Advanced Tools for Building the Next Generation of 'Shiny' Applications and Dashboards robustmeta:  Robust Inference for Meta-Analysis with Influential Outlying Studies lnmCluster:  Perform Logistic Normal Multinomial Clustering for Microbiome Compositional Data binaryTimeSeries:  Analyzes a Binary Variable During a Time Series codebookr:  Create Codebooks from Data Frames dots:  Dot Density Maps ggpackets:  Package Plot Layers for Easier Portability and Modularization trouBBlme4SolveR:  Troubles Solver for 'lme4'
Jul 22, 202206:40
Episode 16: The Wizard of Stats
Jul 15, 202204:50
Episode 15: Data Synthetic and the Multiverse of Modeling
Jul 08, 202205:60
Episode 14:  Outliers from the Reaches of Sample Space
Jul 01, 202205:14
Episode 13: Funny-Looking Bioinformatics
Jun 24, 202207:09
Episode 12: Bayesian Fire Engine
Jun 17, 202205:11
Episode 11: Putting the Meta in Meta and Drooling Over Donut Plots

Episode 11: Putting the Meta in Meta and Drooling Over Donut Plots

Jun 10, 202208:41
Episode 10: Multiple Last Names and Growing a Backbone

Episode 10: Multiple Last Names and Growing a Backbone

In this episode, I chained together multiple scientific last names, found heaps of PLOS ONE journal articles, and learned how to grow a backbone in R using package ‘backbone’.

References:

Event History Regression with Pseudo-Observations: Computational Approaches and an Implementation in R More on Multidimensional Scaling and Unfolding in R: smacof Version 2 A Practical Guide to the Numerical Implementation of Tensor Networks I: Contractions, Decompositions, and Gauge Freedom Rank-polyserial correlation. Quest for a "missing" coefficient of correlation Assessing and visualizing fragility of clinical results with binary outcomes in R using the fragility package backbone: An R package to extract network backbones Evaluation of spatial Bayesian Empirical Likelihood models in analysis of small area data Clinical artificial intelligence quality improvement: towards continual monitoring and updating of AI algorithms in healthcare The interplay between ranking and communities in networks Random assignment of subjects to groups in SAS Using formatted CLASS variables Python 3.11.0b2 is now available shadowr: Selenium plugin to manage multiple levels of shadow elements on web page Difference Between Standard Deviation and Standard Error Clopper-Pearson Exact Method Applications of Python | Top 10 uses of Python for The Real World 15 Fun & Easy Excel Project Ideas To Sharpen Your Skills 2022-01 Vectorised Pattern Fills in R Graphics April: “Top 40” New CRAN Packages R Packages Download Stats

R-packages:

AHSurv: Flexible Parametric Accelerated  Hazards Models misPRIME: Partial Replacement Imputation Estimation for Missing Covariates tracee: Easily Save Output and Trace it Back to Code backbone: Extracts the Backbone from Graphs
Jun 03, 202209:33
Episode 9: Boxes and Babies

Episode 9: Boxes and Babies

May 27, 202210:09
Episode 8: Shortened Blankets
May 18, 202208:05
Episode 7: Riding the Python Lightning

Episode 7: Riding the Python Lightning

May 13, 202208:36
Episode 6: Mixes and Metabolomics
May 06, 202209:26
Episode 5: Stretching the Limits and Vigorous Calisthenics

Episode 5: Stretching the Limits and Vigorous Calisthenics

Apr 29, 202207:37
Episode 4: Stealing Python’s Thunder and Rolling Your Rs
Apr 22, 202206:22
Episode 3: Jackknifing, Leibniz, and Feeling the Python Breeze

Episode 3: Jackknifing, Leibniz, and Feeling the Python Breeze

In this episode, I play with jackknives, chuckle over Python, list upcoming R conferences, and showcase the R-package ‘RcppBDT’.


References:

Additive Noise-Induced System Evolution (ANISE)

Face Recognition in Single Sample Per Person Fusing Multi-Scale Features Extraction and Virtual Sample Generation Methods

An Epidemiological Compartmental Model With Automated Parameter Estimation and Forecasting of the Spread of COVID-19 With Analysis of Data From Germany and Brazil

Accelerating Jackknife Resampling for the Canonical Polyadic Decomposition

The last Python 3.11 alpha (3.11.0a7) is available

New methods for solving differential equations in SAS

Pascal matrices and inverses

Enhancements to HTML Documentation

Some discussion of “how to get confident with statistics”: Reading, practicing, and questioning

Permutation vs Combination: Differences & Examples

Chi-Square Goodness of Fit Test: Uses & Examples

SPSS Syntax 101

The sftime Package

To impute or not: the case of an RCT with baseline and follow-up measurements

Why you should(n’t) care about Monads if you’re an R programmer

Bayesian Estimation by using rjags Package

Upcoming R conferences (2022)


R-packages:

clusterHD: Tools for Clustering High-Dimensional Data

Allspice: RNA-Seq Profile Classifier

cheatR: Catch Cheaters

spooky: Time Feature Extrapolation Using Spectral Analysis and Jack-Knife Resampling

taxonbridge: Create Custom Taxonomies Based on the NCBI Taxonomy and GBIF Backbone Taxonomy

wrMisc: Analyze Experimental High-Throughput (Omics) Data

findInFiles: Find Pattern in Files

mclogit: Multinomial Logit Models, with or without Random Effects or Overdispersion

aRtsy: Generative Art with 'ggplot2'

glmm: Generalized Linear Mixed Models via Monte Carlo Likelihood Approximation

glmtoolbox: Set of Tools to Data Analysis using Genera

RcppBDT: 'Rcpp' Bindings for the Boost Date_Time Library

Apr 15, 202208:38
Episode 2: Lies, Two-Truths and a Lie, and Statistical R-packages

Episode 2: Lies, Two-Truths and a Lie, and Statistical R-packages

Apr 08, 202207:17
Episode 1: Getting a Flat Distribution Under Us

Episode 1: Getting a Flat Distribution Under Us

In this episode, I brace myself for the R release of Vigorous Calisthenics, scratch my head at Lyapunov Exponents, survey the brewing battlefield in the AI/ML Wars, and showcase the R-package 'numform'.


References:

https://journal.r-project.org/archive/2021/RJ-2021-109/RJ-2021-109.pdf

https://journal.r-project.org/archive/2021/RJ-2021-080/RJ-2021-080.pdf

https://www.jstatsoft.org/article/view/v101i12

https://www.frontiersin.org/articles/10.3389/fams.2022.818799/full

https://www.frontiersin.org/articles/10.3389/fams.2022.869999/full

https://www.frontiersin.org/articles/10.3389/fams.2022.839669/full

https://cran.r-project.org/index.html

https://pythoninsider.blogspot.com/2022/03/python-3110a6-is-available.html

https://blog.python.org/2022/03/python-3103-3911-3813-and-3713-are-now.html

https://blog.python.org/2022/03/python-3104-and-3912-are-now-available.html

https://julialang.org/blog/2022/02/10years/

https://www.statistics.com/data-literacy-the-chainsaw-case/

https://errorstatistics.com/2022/03/23/the-ai-ml-wars-explain-or-test-black-box-models/

https://statmodeling.stat.columbia.edu/2022/03/27/the-examples-you-see-in-the-textbooks-are-not-representative-of-the-sorts-of-problems-you-see-in-the-real-world/

https://statisticsbyjim.com/regression/interpret-coefficients-p-values-regression/

https://www.r-bloggers.com/2022/03/february-2022-top-40-new-cran-packages/

https://www.r-bloggers.com/2022/03/how-i-analyze-100-ggplots-at-once/

https://cran.r-project.org/web/packages/numform/numform.pdf

Apr 01, 202207:39
Statistics Weekly Trailer

Statistics Weekly Trailer

Trailer for the podcast Statistics Weekly.


Mar 30, 202201:03