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kaz_yos

Kazuki Yoshida

Recently Published

Competing risk analysisのデモ
Venn diagrams
Faraway Linear Models with R: Collinearity
Modern Epidemiology Chapter 10: Demonstration of p-value functions
Epidemiology: Beyond the Basics: Analysis of Age, Birth Cohort, and Period Effects
Age, Cohort, and Period Effects using Cancer Mortality data in Japan
Clinical Prediction Models Chapter 13: Modern Estimation Methods
Cubit spline test run
Use of propensity scores illustrated
Residual plots in linear regression
Principles of Biostatistics Chap 13: Nonparametric Methods
Strange variance covariance matrix Cov(Yi) behavior in nlme
Emulating SAS BY statement in R
survival::survSplit problem with Surv object
Cox regression in R
EPI204 Lab 4 in R
EPI204 Lab 5 in R
95% Confidence interval demonstration
BIO226 Applied Longitudinal Analysis: Marginal Model using Generalized Estimating Equations
Modeling skewed continuous outcome using Gamma family in glm()
Adjustment for multiple testing
EPI204 Lab 2 in R
EPI204 Lab 1 in R
Drawing survival curves in R
BIO 223 Applied Survival Analysis Chapter 8: Parametric Survival Analysis
Overplotting Non-parametric vs Parametric survival models
生存曲線: Non-parametric vs Parametric models
BIO 226: Homework Assignment 3 in R
EPI 204 Homework 3 in R
kaz_yos RPubs もくじ
kaz_yos RPubs Table of Contents
Unified Approach to Ordinal (cumulative) and Polytomous (multinomial) Logistic Regressions using VGAM::vglm
Conditional logistic regression
ggplot2: coloring under empiric density curve using geom_area
regexp test in R
EPI 204 Homework 2 in R
Creating tables, accessing elements of tables, and accessing elements of other objects
coxphにおけるtime-dependent covariatesの使い方
BIO 223 Applied Survival Analysis Chapter 7: Time-varying covariates
pROC test run
BIO 226: Homework 5 in R (Computation parts only)
pROC::roc.test DeLong method possible improvement
pROC and large dataset
Summarizing data by groups in R
Re-installing the same packages in R 3.0.0
Handling of NA in == and is.element()
Basic graphics in R
Kleinbaum: Stratified Cox regression
Kleinbaum: Checking poroportional hazard assupmtion
ggplot2: stat_summary() version 0.9.3.1
BIO 223 Applied Survival Analysis: Checking model fit and poroportional hazard assupmtion
John Snow’s Cholera Map
EPI 289 Models for Causal Inference 2013 Final Exam in R (computation part only)
Preparing data for modeling in R
BIO 226 AUC-MB contrast
Data Manipulation with actual examples
EPI 289: Homework 4 in R
R in Action: Chapter 15 Advanced methods for missing data
EPI 289 R translation of 4.3_ipw.sas (IPTW and IPCW)
BIO 226: Homework 2 in R
BIO 223: Applied Survival Analysis HOMEWORK I in R
EPI 289: Homework 3 in R
cox.zph to Test the Proportional Hazards Assumption of a Cox Regression
Creating permutations and combinations with replacement
Strange variance-covariance matrix in nlme
EPI 289 R translation of 4.2_ipw_msm.sas
Reading data in and basic data manipulation in R
EPI 289: Homework 2 in R
EPI 289 R translation of 4.1_ipw.sas
EPI 289 R translation of 3_standardplusbootstrap.sas
EPI 289 R translation of 2.2_propensity.sas
EPI 289 R translation of 2.1_conventionalreg.sas
EPI 289: Homework 1 in R
Meta-analyses using meta package
BIO 226 Applied Longitudinal Analysis: Introduction to Data Sets
Installing all R Commander plugins
EPI 289. Models for Causal Inference – Spring 1 2013 Lab 1 Exercises
EPI 288 Lecture 5: Classification and Regression Trees (CART)
Assessment of Discrimination in Survival Analysis (C-statistics, etc)
Bayesian Computation with R: Chosing a Beta Prior (page 23)
EPI 288 Lecture 3: Principal Component Analysis
R Color Chart
EPI 288 Lecture 2: Cluster analysis
EPI 271 Propensity Score Lab 3: Use of propensity scores
EPI 271 Propensity Score Lab 2
EPI 271 Lab 1
EPI 288 Lecture 1: Multiple testing
複数のboxplotを一度に作成する
car::recode solution
useR@HSPH
Doing Bayesian Data Analysis: Figure 5.2
Doing Bayesian Data Analysis: Figure 5.1
Doing Bayesian Data Analysis: Figure 3.1
Doing Bayesian Data Analysis: Figures 4.1, 4.2, and 4.3
ggplot2でグラフを部品から組み上げる
A Happy New Year with ggplot2
データ解析のための統計モデリング入門 Chapter 2
ggplot2: Plotting functions
ggplot2: axis manipulation and themes
ggplot2: stat_summary
ggplot2: Toolbox examples in ggplot2 book
ggplot2: layer by layer plotting
Bootstrap (test)
LaplacesDemon package
Dobson An Introduction to GLM: Chapter 12 Bayesian Analysis
Bayesian updating
survey package
Group Sequential Methods
Linearity in logistic regression
Run-length encoding
Epidemiology 202: Homework 3
Polytomous Logistic Regression
Ordinal logistic regression
effects package does not work with logical variables
Function to get odds ratios or rate ratios
Rで臨床研究1: Table 1の検定をする
Logistic regression 1: Prepare data/specify model/read results
Linear regression 2: Model selection
Assessment of performance of prediction models with PredictABEL
Biostatistics 213: Homework 8
Linear regression 1: Prepare data/specify model/read results
Post-test probabilities
My knitr configuration
Repeating univariate logistic regression using R/SAS
Epidemiology 202: Homework 3 Template
BIO 213 Homework 7
Expand tables back to individual-level data
Quantile regression, including median regression
Stepwise model selection
All subset regression with leaps, bestglm, glmulti, and meifly
slidify
Installing slidify
Two-dimentional gaussian surface
Residual analysis in linear regression (abbreviated BIO213 version)
Happy Thanksgiving!!
Residual analysis in linear regression (BIO213 version)
boxplot with arbitrary design with ggplot2
Summary statistics using rpsychi package
dagR: Directed Acyclic Graph with R
Cluster analysis (k-means)
Cross tabulating subgroup means
BIO 213 Regression: Interaction between two categorical variables
PH207x Week 3
PH207x Week 2
Negative Binomial Regression vs Poisson Regression
Poisson regression for rates
EPI 202 HW1
BIO 213 Regression: Interaction between a continuous and categorical variables (effect package)
Code IQ: ログ解析
Code IQ: Rではじめる統計解析 by Tokyo.R
Epidemiology 202: Problem Set 1 Measures of Disease Occurrence and Association
Epidemiology 202: Problem Set 2 Non-Differential Misclassification
PH207x Week 1
Rgraphviz test
BIO 213 Regression: Interaction between a continuous and categorical variables
Categorical Data with R
Using Deducer without GUI
My init.el for ESS etc
Positive/Negative Predictive Values from Sensitivity, Sepcificity, Prevalence
SAScii test: Import .dat files for SAS using .sas scripts from R
EPI 221 Sep 26
Residual analysis in linear regression
Goodness fit assessment and model comparison
Basic graphing with R
BIO 213 Homework 6
BIO 509 Homework 5
Groupwise comparison for continuous variables
homework5
Exhaustive model selection (test)
BIO 208 Final Exam
Adding smooth curves to scatter plots (test)
Descriptive statistics with R
Merging data
Any idea for creating a new variable from multiple-variable conditions?
BIO 213 Homework 4
BIO 201 Homework 5
BIO 509 Homework 3
BIO 509 Homework 1
BIO 201 Homework 4
BIO 201 Homework 3
Probability functions in R
Reading data into R
BIO232 Homework 1
BIO232 Lab 1
BIO 213 Homework 3
20120921 Introduction to R
ROC曲線とその比較 (in Japanese)
Biostatistics 201: Lab 1
BIO 201: Homework 2
BIO 509 Examples
Links to other pages of mine
EPI 201 Homework 1
Biostatistics 213: Homework 2
BIO 201: Homework 1
Data structures in R (Japanese ver)
Constructing tables with R (Japanese ver)
Kaplan-Meier plot (Japanese ver)
EPI 208 homework2
Homework 1 for EPI 208
BIO 213 homework1
geom_dotplot()
Plotting OR (experimental)
HSPH Materials Translated
subset for a given ggplot2 layer
Getting data from GapMinder.org Revised
USA drug sales data extraction
Getting data from GapMinder.org
Creating multiple xtabs for different row variables with the same row variable
Categorical counterpart of the previous post.
Performing multiple t-tests on different variables between the same two groups
BIO 206 SAS codes translated to R
BIO 208 SAS codes translated to R
HSPH Summer PCE SAS code translated to R
Data manipulation using transform(), within(), or plyr::mutate()
My solution to "My no loops in R hair shirt"
My solution to: http://shape-of-code.coding-guidelines.com/2012/07/27/my-no-loops-in-r-hair-shirt/
metaanalysis (comments in Japanese)
Mantel-Haenszel method OR for stratified data
RDS 286: Case #6 Resource Allocation
RDS 286: Case #5A Utility Assessment
RDS 286: Case #5B Kidney Dialysis and Transplantation
Standard error of mean decreases as sample size gets bigger
BIO 206: Demonstration of central limit theorem
Demonstration of survival curves with different hazard function
EPI 208: Comparison of proportions and odds
RDS 286: Case #3 The Lung Nodule
RDS 286: Case #4 HIV Screening
RDS 286: Chapter 7 of Hunink et all 2001.
RDS 286: Excercise 3.1
RDS 286: Case #2 Giant Cell Arteritis
RDS 286: Case 1: Clinical Case: Young man with Hodgkin’s disease
EPI 208: Rate and Risk
Another demo from Rothman's
Effect measures
Demonstration of equations in Epidemiology: An Introduction