Bioconductor class for interacting with Hi-C files in R

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Documentation for package ‘HiCExperiment’ version 1.8.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

Help Pages

$-method	'HiCExperiment' S4 class
$<--method	'HiCExperiment' S4 class
AggrHiCExperiment	'AggrHiCExperiment' S4 class
AggrHiCExperiment-class	'AggrHiCExperiment' S4 class
anchors-method	'HiCExperiment' S4 class
as	Coercing functions
as.data.frame-method	Coercing functions
as.matrix-method	Coercing functions
availableChromosomes-method	HiCExperiment import methods
availableResolutions-method	HiCExperiment import methods
bin-method	HiCExperiment binning methods
bin-methods	HiCExperiment binning methods
bins-method	'HiCExperiment' S4 class
centros_yeast	Example datasets provided in 'HiCExperiment' & 'HiContactsData'
cis-method	'HiCExperiment' S4 class
cm2matrix	Coercing functions
coerce-method	Coercing functions
ContactsFile	'ContactsFile' S4 class
ContactsFile-class	'ContactsFile' S4 class
ContactsFile-methods	'ContactsFile' S4 class
contacts_yeast	Example datasets provided in 'HiCExperiment' & 'HiContactsData'
contacts_yeast_eco1	Example datasets provided in 'HiCExperiment' & 'HiContactsData'
CoolFile	'CoolFile' S4 class
CoolFile-class	'CoolFile' S4 class
CoolFile-methods	'CoolFile' S4 class
data	Example datasets provided in 'HiCExperiment' & 'HiContactsData'
df2gi	Coercing functions
export	HiCExperiment export methods
export-method	HiCExperiment export methods
export-methods	HiCExperiment export methods
fileName-method	'HiCExperiment' S4 class
focus-method	'HiCExperiment' S4 class
focus<--method	'HiCExperiment' S4 class
gi2cm	Coercing functions
HiCExperiment	'HiCExperiment' S4 class
HiCExperiment-class	'HiCExperiment' S4 class
HicFile	'HicFile' S4 class
HicFile-class	'HicFile' S4 class
HicFile-methods	'HicFile' S4 class
HicproFile	'HicproFile' S4 class
HicproFile-class	'HicproFile' S4 class
HicproFile-methods	'HicproFile' S4 class
import	HiCExperiment import methods
import-method	HiCExperiment import methods
import-methods	HiCExperiment import methods
interactions-method	'HiCExperiment' S4 class
interactions<--method	'HiCExperiment' S4 class
length-method	'HiCExperiment' S4 class
makeHiCExperimentFromGInteractions	'HiCExperiment' S4 class
McoolFile-class	'CoolFile' S4 class
metadata<--method	'ContactsFile' S4 class
metadata<--method	'HiCExperiment' S4 class
PairsFile	'PairsFile' S4 class
PairsFile-class	'PairsFile' S4 class
pairsFile-method	'ContactsFile' S4 class
pairsFile-method	'HiCExperiment' S4 class
pairsFile-method	'PairsFile' S4 class
pairsFile<--method	'HiCExperiment' S4 class
refocus-method	'HiCExperiment' S4 class
regions-method	'HiCExperiment' S4 class
resolution-method	'ContactsFile' S4 class
resolution-method	'HiCExperiment' S4 class
resolutions-method	'HiCExperiment' S4 class
scores-method	'HiCExperiment' S4 class
scores<--method	'HiCExperiment' S4 class
seqinfo-method	'HiCExperiment' S4 class
show-method	'AggrHiCExperiment' S4 class
show-method	'CoolFile' S4 class
show-method	'HiCExperiment' S4 class
show-method	'HicFile' S4 class
show-method	'HicproFile' S4 class
slices-method	'AggrHiCExperiment' S4 class
subsetByOverlaps-method	'HiCExperiment' S4 class
topologicalFeatures-method	'HiCExperiment' S4 class
topologicalFeatures<--method	'HiCExperiment' S4 class
trans-method	'HiCExperiment' S4 class
zoom-method	'HiCExperiment' S4 class
[-method	'HiCExperiment' S4 class