h5report: Generating ICA or PCA summary reports.

In jinhyunju/icreport: Tools for creating a visual summary of matrix decomposition results.

Description

Generating a HTML report from a ICA or PCA list object.

Usage

h5report(input_h5 = NULL, output.path = NULL)

Arguments

output.path	Directory path for generating the output HTML file. default is set to current working directory.
input	ICA or PCA result list created by either gene_expr_ica() or gene_expr_pca().
n.comps	Number of principal components to plot. Default is set to plot every PC. Only used for PCA plotting not for ICA plotting.
prefix	Output filename prefix. The output file will be named "prefix_ICA_summary.html".
geneinfo.df	Dataframe that contains positions of the genes. Column names should be "pheno_chr" for chromosomes, "pheno_start" for starting position and "pheno_end" for ending positions.
file.ext	File extension to be used for saved plots. Default is set to png for html reports. Note that if you use pdf plots for html files they will not show up in your report.

Value

output HTML report.

jinhyunju/icreport documentation built on May 19, 2019, 10:35 a.m.