Man pages for multiHiCcompare
Normalize and detect differences between Hi-C datasets when replicates of each experimental condition are available

cyclic_loessCyclic Loess normalization for Hi-C data
fastloPerform fast loess normalization on a Hi-C experiment
HCT116_r1A 4 column sparse matrix for a Hi-C matrix.
HCT116_r2A 4 column sparse matrix for a Hi-C matrix.
HCT116_r3A 4 column sparse matrix for a Hi-C matrix.
HCT116_r4A 4 column sparse matrix for a Hi-C matrix.
HCT116_r5A 4 column sparse matrix for a Hi-C matrix.
HCT116_r6A 4 column sparse matrix for a Hi-C matrix.
hg19_cytoA GenomicRanges object containing centromeric, gvar, and...
hg38_cytoA GenomicRanges object containing centromeric, gvar, and...
hic_exactTestPerform exact test based difference detection on a Hi-C...
hicexp2hicexp object with 4 samples from two groups.
Hicexp-classAn S4 class for working with Hi-C data
hicexp_diffhicexp object with 7 samples from two groups.
hic_filterPerform filtering on a Hi-C experiment
hic_glmFunction to perform GLM differential analysis on Hi-C...
hic_scalePerform library scaling on a hicexp object
hic_tablePrint the hic_table
make_hicexpMake Hi-C experiment object from data
manhattan_hicexpManhattan plot function for results of multiHiCcompare
MD_compositePlot a composite MD plot with the results of a comparison
MD_hicexpMake MD plots for all combinations of a condition
metaPrint the metadata
normalizedPrint the indicator for if the data is normalized
perm_testPerform a permutation test to check enrichment of a genomic...
plot_countsPlot the count results from topDirs
plot_pvalsPlot the p-value results from topDirs
pval_heatmapFunction to visualize p-values from multiHiCcompare results
resolutionPrint the resolution
resultsPrint the results
showPrint information about a HiCexp object
smartApplyFunction to apply either biocParallel or standard lapply
topDirsFilter results of multiHiCcompare
multiHiCcompare documentation built on Nov. 1, 2018, 2:59 a.m.