VirtUaL ChIP-Seq data Analysis using Networks


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Documentation for package ‘vulcan’ version 1.20.0

Help Pages

average_fragment_length Define the average fragment length
corr2p Convert correlation coefficient to p-value
densityauc densityauc - Calculate the AUC of a density object
dpareto Probability density of Pareto distributions
fisherp Fisher integration of p-values
gsea GSEA
kmgformat kmgformat - Nice Formatting of Numbers
null_gsea Calculate Null Distribution for GSEA
p2corr Convert p-value to correlation coefficient
p2z p2z
pareto.fit Estimate parameters of Pareto distribution
plot_gsea Plot GSEA results
ppareto Cumulative distribution function of the Pareto distributions ' Gives NA on values < threshold
rea REA: Rank EnrichmeNt Analysis
slice Slice
stouffer Stouffer integration of Z scores
textplot2 textplot2 - An x y plot of non-overlapping text
val2col Convert a numeric vector into colors
vulcan VULCAN - VirtUaL Chipseq data Analysis using Networks
vulcan.annotate Function to annotate peaks for VULCAN analysis
vulcan.import Function to import BAM files
vulcan.normalize Function to normalize promoter peak data
vulcan.pathways Function to calculate pathway enrichment over a ChIP-Seq profile
wstouffer Weighted Stouffer integration of Z scores
z2p z2p