Bioconductor class for interacting with Hi-C files in R


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Documentation for package ‘HiCExperiment’ version 1.0.0

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$-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
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
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