estimateKinetics: Calculate kinetic rates for genes using multiple thread

In haiyueliu/Eskrate: Estimate time-dependent RNA kinetics

Calculate kinetic rates for genes using multiple thread

Description

Calculate kinetic rates for genes using multiple thread

Usage

estimateKinetics(smoothedObservedData, threadN = 8, numberOfSplineAnchors = 20)

Arguments

threadN	an integer the number of thread for the calculation (default: 8)
observedData	a data frame with gene expression of m_u, m_total, p_u and p_total in sorted cells.
numberofSplineAnchors	an integer for the number of anchor points used for smooth the gene expression profiles along the cell cycle (default: 20)

Value

a data frame with columns of gene, cc_time (cell cycle time), transcription rate (alpha), degradation rate (gamma).

Examples

data_rates <- estimateKinetics(observedData = observed.data, threadN = 8, numberOfSplineAnchors = 20)



calculate kinetic rates for multiple genes using multiple thread

haiyueliu/Eskrate documentation built on Sept. 3, 2023, 3:33 p.m.