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 Fund... more

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FAQs about Science Research Weekly:

How many episodes does Science Research Weekly have?

The podcast currently has 181 episodes available.

Science Research Weekly episodes:

October 21, 2022Episode 30: The GitHub Secret Sauce
In this episode, I spilled the secret sauce behind my research methods, predicted extreme events, pursued plots off the beaten ggplot path, and added another simulation-based power analysis tool to my belt.
References:
Statistics Weekly Research GitHub Repository

Flexible time-to-event models for double-interval-censored infectious disease data with clearance of the infection as a competing risk

Predicting the data structure prior to extreme events from passive observables using echo state network

SCpubr: Generate high quality, publication-ready plots of single-cell transcriptomics data

Concordances

the difference between chi square tests of independence and homogeneity

How to create a ggalluvial plot in R?

How to create a Sankey plot in R?

Understanding the Basics of Package Writing in R

R-packages:
VIGoR: Variational Bayesian Inference for Genome-Wide Regression

ggstats: Extension to 'ggplot2' for Plotting Stats

mlpwr: A Power Analysis Toolbox to Find Cost-Efficient Study Designs

ARIMAANN: Time Series Forecasting using ARIMA-ANN Hybrid Model

makeunique: Make Character Strings Unique
...more
7min
October 14, 2022Episode 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'
...more
7min
October 07, 2022Episode 28: Everything’s Coming Up Machine Learning
In this episode, I netted new ways to knock neural networks out of the park, let R do my calculus calculations for me, garnered gentle overviews to many machine learning topics, and made sure my phylogenic trees were publication ready with the R package ‘CancerEvolutionVisualization'.
References:
Pathogen.jl: Infectious Disease Transmission Network Modeling with Julia

calculus: High-Dimensional Numerical and Symbolic Calculus in R

Deep Image Prior for medical image denoising, a study about parameter initialization

On Physics-Informed Neural Networks for Quantum Computers

Not frequentist enough.

ggradar: radar plots with ggplot in R

Mastering Debugging in R

Understanding leaf node numbers when using rpart and rpart.rules

A Gentle Introduction to using Support Vector Machines for Classification

Boosting in Machine Learning: A Brief Overview

Algorithm Classifications in Machine Learning

R-packages:
pirouette: Create a Bayesian Posterior from a Phylogeny

CancerEvolutionVisualization: Publication Quality Phylogenetic Tree Plots

odetector: Outlier Detection Using Partitioning Clustering Algorithms

stats4teaching: Simulate Pedagogical Statistical Data

camcorder: Record Your Plot History

openxlsx2: Read, Write and Edit 'xlsx' Files
...more
6min
September 30, 2022Episode 27: Statistical Models on the Quick
In this episode, I kept it quick with appropriate microbial resistance data procedures, using a TI 83 calculator for statistics, and hoping for an easy entry to NEON data wrangling with package ‘neonOS’.
References:
Statistical Network Analysis with Bergm

ParMA: Parallelized Bayesian Model Averaging for Generalized Linear Models

AMR: An R Package for Working with Antimicrobial Resistance Data

new version of package declared

3 ways to enhance productivity with AI

TI 83 for Statistics: Easy Steps for Common Problems

Hazard Ratio: Interpretation & Definition

Writing Functions in R

August 2022: “Top 40” New CRAN Packages

R-packages:
easydb: Easily Connect to Common Types of Databases

neonOS: Basic Data Wrangling for NEON Observational Data

getpublist: Obtain a List of Publications from 'PubMed' and 'Google Scholar'

adjustedCurves: Confounder-Adjusted Survival Curves and Cumulative Incidence Functions
...more
5min
September 23, 2022Episode 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
...more
5min
September 16, 2022Episode 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
...more
9min
September 09, 2022Episode 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
...more
11min
September 02, 2022Episode 23: Biting Off More Statistics Than I Can Chew
In this episode, I bite off more journal articles than I could chew, bookmarked how to reorder SGPLOT bars, was underwhelmed by R surprises, and muddled through the meta-package ‘easystats’.
References:
On the Programmatic Generation of Reproducible Documents

Automatic Identification and Forecasting of Structural Unobserved Components Models with UComp

exuber: Recursive Right-Tailed Unit Root Testing with R

The R Journal Volume 14/1

A unified Framework for analyzing complex systems: Juxtaposing the (Kernel) PCA method and Graph Theory

Grand Challenges in Mathematical Biology: Integrating Multiscale Modelling and Data

CohensdpLibrary: Compute Cohen's d and its confidence interval in any experimental design

Two types of syntax for the SELECT-WHEN statement in SAS

Order the bars in a bar chart with PROC SGPLOT

Top 10 online data science programs

How to handle Imbalanced Data?

July 2022: “Top 40” New CRAN Packages

Surprising Things You Can Do With R

SAS vs R Programming: Which to Choose and How to Switch
R-packages:
easystats: Framework for Easy Statistical Modeling, Visualization, and Reporting

once: Execute Expensive Operations Only Once

snSMART: Small N Sequential Multiple Assignment Randomized Trial Methods

tidyplus: Additional 'tidyverse' Functions

transPlotR: Visualize Transcript Structures in Elegant Way
...more
12min
August 26, 2022Episode 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
...more
8min
August 19, 2022Episode 21: Behind the Statistical Software Curve
In this episode, I played catch-up with the Journal of Statistical Software, schemed how to snag a top spot in the XP Learning Challenge, and roared alongside the R-package ‘TRexSelector’.
References:
modelsummary: Data and Model Summaries in R

stringi: Fast and Portable Character String Processing in R

evgam: An R Package for Generalized Additive Extreme Value Models

Julia 1.8 Highlights

The Box-Cox transformation for a dependent variable in a regression

TDApplied: Machine Learning and Inference for Topological Data Analysis

Some project opportunities for Ph.D. students!

Learn data skills, earn points and win money prizes daily with Datacamp!

Designing #TidyTuesday visualisations for mobile (with Quarto)

Find out which data skills are most in demand?
R-packages:
ctmva: Continuous-Time Multivariate Analysis

ggcoverage: Visualize Genome Coverage with Various Annotations

TRexSelector: T-Rex Selector: High-Dimensional Variable Selection FDR Control

countdown: A Countdown Timer for HTML Presentations, Documents, and Web Apps

TDApplied: Machine Learning and Inference for Topological Data Analysis

brassica: 1970s BASIC Interpreter
...more
9min

FAQs about Science Research Weekly:

How many episodes does Science Research Weekly have?

The podcast currently has 181 episodes available.