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Transcription factor Inference through Gaussian process Reconstruction of Expression

Bioconductor version: Release (3.1)

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.

Author: Antti Honkela, Pei Gao, Jonatan Ropponen, Miika-Petteri Matikainen, Magnus Rattray, Neil D. Lawrence

Maintainer: Antti Honkela <antti.honkela at>

Citation (from within R, enter citation("tigre")):


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PDF R Script tigre Quick Guide
PDF R Script tigre User Guide
PDF   Reference Manual
Text   NEWS


biocViews Bayesian, GeneExpression, GeneRegulation, Microarray, NetworkInference, Software, TimeCourse, Transcription
Version 1.22.0
In Bioconductor since BioC 2.6 (R-2.11) (5.5 years)
License AGPL-3
Depends R (>= 2.11.0), BiocGenerics, Biobase
Imports methods, AnnotationDbi, gplots, graphics, stats, utils, annotate, DBI, RSQLite
Suggests drosgenome1.db, puma, lumi, BiocStyle
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