Man pages for kintany/GTExR
Package for GTEx analysis with R scripts

aggregate_countsAggregates reads counts from SNPs to transcript and...
generatePlotsGenerate plots for a given tissue
get_ASE_files_listGets a list of files containing ASE information for a given...
get_counts_for_sampleGets a table with reference and allelic counts for a given...
get_counts_statisticsCalculates mean, sd, CV, CV2 for each gene
get_full_nameGets full tissue name from a short name
get_ratios_sampleGets ratios for a given tissue
get_samples_tissuesReads ratios from the file, subsamples and makes a plot
get_tissue_codeGets tissue code from a short name
load_Gtex_dataCoverts GTEx data from 3 files (downloaded from GTEx website)...
plot_CV2_vs_meanPlots CV2 versus mean
plot_density_ratio_per_individualPlot ratio densities for all tissues
plot_onePlots boxplots for ranges
plot_twoPlots scatterplots
process_to_countsProccesses GTEx counts and merges counts statistics with...
read_countsReads counts for a given tissue
read_counts_and_calc_ratiosReads counts for a given tissue, aggregates them and puts...
read_counts_and_merge_samplesReads counts for a given tissue, aggregates them and puts...
read_ratiosReads ratios for a given tissue
save_countsReads and saves counts for a given tissue
save_counts_tissues_of_interestSaves counts to files for the tissues of interest
save_Gtex_data_by_tissueSaves selected tissues counts to .Rda files
save_ratiosReads and saves ratios for a given tissue
save_ratios_tissues_of_interestSaves ratios to files for the tissues of interest
subsetGtexDataSubsets GTEx ExpressionSet to a given tissue
kintany/GTExR documentation built on Jan. 16, 2018, 11:51 a.m.