exampleDesign {CAGEfightR} | R Documentation |
Subset of the CAGE dataset from the paper 'Identification of Gene Transcription Start Sites and Enhancers Responding to Pulmonary Carbon Nanotube Exposure in Vivo'. CTSS data from subsets of chr18 and chr19 across 3 mouse (mm9 ) samples are included. Datasets can be loaded with the data function.
exampleDesign exampleCTSSs exampleUnidirectional exampleBidirectional exampleGenes
Example data from various stages of CAGEfightR:
DataFrame: Description of samples, including .bw filenames
RangedSummarizedExperiment: CTSSs
RangedSummarizedExperiment: Unidirectional or Tag Clusters
RangedSummarizedExperiment: Bidirectional clusters
RangedSummarizedExperiment: Genes
An object of class RangedSummarizedExperiment
with 41256 rows and 3 columns.
An object of class RangedSummarizedExperiment
with 21008 rows and 3 columns.
An object of class RangedSummarizedExperiment
with 377 rows and 3 columns.
An object of class RangedSummarizedExperiment
with 127 rows and 3 columns.
http://pubs.acs.org/doi/abs/10.1021/acsnano.6b07533
data(exampleDesign) data(exampleCTSSs) data(exampleUnidirectional) data(exampleBidirectional) data(exampleGenes)