ChromatinAssay-class: The ChromatinAssay class
In Honchkrow/SignacSlim: The slim version of signac
ChromatinAssay-class R Documentation
The ChromatinAssay class
Description
The ChromatinAssay object is an extended Assay
for the storage and analysis of single-cell chromatin data.
Slots
rangesA GRanges object describing the
genomic location of features in the object
motifsA Motif object
fragmentsA list of Fragment objects.
seqinfoA Seqinfo object containing basic
information about the genome sequence used.
annotationA GRanges object containing
genomic annotations
biasA vector containing Tn5 integration bias information
(frequency of Tn5 integration at different kmers)
positionEnrichmentA named list of matrices containing positional
enrichment scores for Tn5 integration (for example, enrichment at the TSS)
linksA GRanges object describing linked
genomic positions, such as co-accessible sites or enhancer-gene regulatory
relationships. This should be a GRanges object, where the start and
end coordinates are the two linked genomic positions, and must contain a
"score" metadata column.
Honchkrow/SignacSlim documentation built on April 9, 2022, 1:49 a.m.
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| ChromatinAssay-class | R Documentation |
The ChromatinAssay class
Description
The ChromatinAssay object is an extended Assay
for the storage and analysis of single-cell chromatin data.
Slots
rangesA
GRangesobject describing the genomic location of features in the objectmotifsA Motif object
fragmentsA list of
Fragmentobjects.seqinfoA
Seqinfoobject containing basic information about the genome sequence used.annotationA
GRangesobject containing genomic annotationsbiasA vector containing Tn5 integration bias information (frequency of Tn5 integration at different kmers)
positionEnrichmentA named list of matrices containing positional enrichment scores for Tn5 integration (for example, enrichment at the TSS)
linksA
GRangesobject describing linked genomic positions, such as co-accessible sites or enhancer-gene regulatory relationships. This should be aGRangesobject, where the start and end coordinates are the two linked genomic positions, and must contain a "score" metadata column.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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