Analysis and visualization of short time series data
TimeSeriesExperiment
is a package for visualization and analysis of short,
regular time-series datasets. The package is a comprehensive toolbox built on
TimeSeriesExperiment
class (extension of SummarizedExperiment
) designed
specifically to handle time-course data. Functions included allow user to
perform the analysis efficiently. Apart from native functions,
TimeSeriesExperiment
also includes wrappers around functions from other
package to let the user easily work on TimeSeriesExperiment
object without
having to switch between different frameworks. The package is mostly indended
for gene expression data, but can be applied to any datasets with observations
taken over time.
TimeSeriesExperiment
performs:
To install the package do the following:
install.packages("devtools")
devtools::install_github("nlhuong/TimeSeriesExperiment")
The package is currently submitted to Bioconductor and will be available in the future from:
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("TimeSeriesExperiment")
The examples in the package are based on the data from the study A comparative study of endoderm differentiation in humans and chimpanzees by Blake et al. (2018).
The data used in the vignettes on the Cop1 role in pro-inflammatory response can be accessed from GEO with accession number, GSE114762.
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