ahonkela/tigre: Transcription factor Inference through Gaussian process Reconstruction of Expression

The tigre package implements our methodology of Gaussian process differential equation models for analysis of gene expression time series from single input motif networks. The package can be used for inferring unobserved transcription factor (TF) protein concentrations from expression measurements of known target genes, or for ranking candidate targets of a TF.

Getting started

Package details

AuthorAntti Honkela, Pei Gao, Jonatan Ropponen, Miika-Petteri Matikainen, Magnus Rattray, Neil D. Lawrence
Bioconductor views Bayesian GeneExpression GeneRegulation Microarray NetworkInference TimeCourse Transcription
MaintainerAntti Honkela <antti.honkela@helsinki.fi>
LicenseAGPL-3
Version1.47.1
URL https://github.com/ahonkela/tigre
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
install.packages("remotes")
remotes::install_github("ahonkela/tigre")
ahonkela/tigre documentation built on Aug. 6, 2021, 12:08 p.m.