PWMEnrich - PWM enrichment analysis

A toolkit of high-level functions for DNA motif scanning and enrichment analysis built upon Biostrings. The main functionality is PWM enrichment analysis of already known PWMs (e.g. from databases such as MotifDb), but the package also implements high-level functions for PWM scanning and visualisation. The package does not perform "de novo" motif discovery, but is instead focused on using motifs that are either experimentally derived or computationally constructed by other tools.

Last updated 5 months ago

motifannotationsequencematchingsoftware

5.03 score 22 dependencies

rTRM - Identification of Transcriptional Regulatory Modules from Protein-Protein Interaction Networks

rTRM identifies transcriptional regulatory modules (TRMs) from protein-protein interaction networks.

Last updated 5 months ago

transcriptionnetworkgeneregulationgraphandnetworkbioconductorbioinformatics

2 stars 4.68 score 42 dependencies 1 dependents

codelink - Manipulation of Codelink microarray data

This package facilitates reading, preprocessing and manipulating Codelink microarray data. The raw data must be exported as text file using the Codelink software.

Last updated 5 months ago

microarrayonechanneldataimportpreprocessing

4.20 score 43 dependencies

rTRMui - A shiny user interface for rTRM

This package provides a web interface to compute transcriptional regulatory modules with rTRM.

Last updated 5 months ago

transcriptionnetworkgeneregulationgraphandnetworkgui

1 stars 3.30 score 93 dependencies