Man pages for wefang/ghelper
Genomics Helper Functions

aveMatFac	Average matrix rows based on a factor
bam2bin	Convert bam files to bin counts
bin2bp	Convert bin indices to base pair indices
bp2bin	Convert base pair indices to bin indices
chr2gw	Convert chromosome bin indices to genome wide bin indices.
chr2num	Convert seqnames to numeric chromosome indices. Old. For the...
countReads	Count reads in bins from GeonomicAlignments object.
empirical.pvalue	Calculate empirical p-values
gw2chr	Convert vector of genome wide bin indices to a list of...
image.na	Wrapper of image with additional features
import.narrowPeak	Imports narrowPeak files
list2gw	Convert a list of indices per chromosome (must have 23 items...
load.chrlen	Load chromosome length and bin counts into global environment
make.bins.gr	Create a 'GRanges' object for bins.
pca.reduce	Wrapper for base prcomp
perm.mat	Permutate columns of matrix independently
perm.mat.multi	Permutate columns of multiple matrix independently
seq2num	Convert seqnames to numeric chromosome indices. chrX mapped...
ta2bin	Convert tagAlign files to bin counts