The phenotype data is a numerical vector of length 120. It represents 120 dichotomous measured phenotypes for 120 organisms. We used it as a dependent variable in combination with the genotype.saap data, and quantified the association between each of the SAAP and the phenotype.
A numerical vector with 120 elements (organisms) which correspond to the rows of he genotype data.
Vector of 120 metric elements, representing phenotypes measured for 120 organisms.
Loading required package: randomForest randomForest 4.6-12 Type rfNews() to see new features/changes/bug fixes. Loading required package: e1071 Loading required package: ggplot2 Attaching package: 'ggplot2' The following object is masked from 'package:randomForest': margin Loading required package: effsize Loading required package: Biostrings Loading required package: BiocGenerics Loading required package: parallel Attaching package: 'BiocGenerics' The following objects are masked from 'package:parallel': clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB The following object is masked from 'package:randomForest': combine The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, append, as.data.frame, cbind, colMeans, colSums, colnames, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rowMeans, rowSums, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which, which.max, which.min Loading required package: S4Vectors Loading required package: stats4 Attaching package: 'S4Vectors' The following object is masked from 'package:base': expand.grid Loading required package: IRanges Loading required package: XVector Attaching package: 'Biostrings' The following object is masked from 'package:base': strsplit Loading required package: rjags Loading required package: coda Linked to JAGS 4.2.0 Loaded modules: basemod,bugs Warning message: In data(dichotomous.phenotype.saap) : data set 'dichotomous.phenotype.saap' not found
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