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scrime (version 1.3.7)

Analysis of High-Dimensional Categorical Data Such as SNP Data

Description

Tools for the analysis of high-dimensional data developed/implemented at the group "Statistical Complexity Reduction In Molecular Epidemiology" (SCRIME). Main focus is on SNP data. But most of the functions can also be applied to other types of categorical data.

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Version

Install

install.packages('scrime')

Monthly Downloads

5,834

Version

1.3.7

License

GPL-2

Maintainer

Holger Schwender

Last Published

January 25th, 2026

Functions in scrime (1.3.7)

recodeSNPs

Recoding of SNP Values
recodeAffySNP

Recoding of Affymetrix SNP Values
rowCATTs

Rowwise Cochran-Armitage Trend Test Based on Tables
predictFBLR

Predict Case Probabilities with Full Bayesian Logic Regression
pcc

Pearson's Contingency Coefficient
rowMAFs

Rowwise Minor Allele Frequency
summary.simSNPglm

Summarizing a simSNPglm object
knncatimputeLarge

Missing Value Imputation with kNN for High-Dimensional Data
rowHWEs

Rowwise Test for Hardy-Weinberg Equilibrium
rowCors

Rowwise Correlation with a Vector
snp2bin

Transformation of SNPs to Binary Variables
predict.pamCat

Predict Method for pamCat Objects
rowChisq2Class

Rowwise Pearson's ChiSquare Test Based on Tables
rowFreqs

Rowwise Frequencies
rowChisqStats

Rowwise Pearson's ChiSquare Statistic
pamCat

Prediction Analysis of Categorical Data
rowMsquares

Rowwise Linear Trend Test Based on Tables
rowScales

Rowwise Scaling
simulateSNPglm

Simulation of SNP data
simulateSNPcatResponse

Simulation of SNP Data with Categorical Response
rowTrendFuzzy

Trend Test for Fuzzy Genotype Calls
rowTables

Rowwise Tables
rowTrendStats

Rowwise Linear Trend Tests
scrime-internal

Internal scrime functions
simulateSNPs

Simulation of SNP data
shortenGeneDescription

Shorten the Gene Description
smc

Simple Matching Coefficient and Cohen's Kappa
showChanges

Displaying Changes
abf

Approximate Bayes Factor
computeContCells

Pairwise Contingency Tables
gknn

Generalized k Nearest Neighbors
computeContClass

Rowwise Contigency Tables
buildSNPannotation

Construct Annotation for Affymetrix SNP Chips
identifyMonomorphism

Identification of Constant Variables
fblr

Full Bayesian Logic Regression for SNP Data
colEpistatic

Cordell's Test for Epistatic Interactions
knncatimpute

Missing Value Imputation with kNN
analyse.models

Summarize MCMC sample of Bayesian logic regression models