regioneR: an R/Bioconductor package for the association analysis of genomic regions based on permutation tests
Institute of Predictive and Personalized Medicine of Cancer · Josep Carreras Leukaemia Research Institute
Abstract
MOTIVATION: Statistically assessing the relation between a set of genomic regions and other genomic features is a common challenging task in genomic and epigenomic analyses. Randomization based approaches implicitly take into account the complexity of the genome without the need of assuming an underlying statistical model. SUMMARY: regioneR is an R package that implements a permutation test framework specifically designed to work with genomic regions. In addition to the predefined randomization and evaluation strategies, regioneR is fully customizable allowing the use of custom strategies to adapt it to specific questions. Finally, it also implements a novel function to evaluate the local specificity of the…
Citation impact
- FWCI
- 16.35
- Percentile
- 100%
- References
- 9
Authors
6- BGBernat Gel
Institute of Predictive and Personalized Medicine of Cancer
- ADAnna Díez-Villanueva
Institute of Predictive and Personalized Medicine of Cancer
- ESEduard Serra
Institute of Predictive and Personalized Medicine of Cancer
- MBMarcus Buschbeck
Josep Carreras Leukaemia Research Institute, Institute of Predictive and Personalized Medicine of Cancer
- MAMiguel A. Peinado
Institute of Predictive and Personalized Medicine of Cancer
Topics & keywords
- Bioconductor
- Computer science
- R package
- Permutation (music)
- Set (abstract data type)
- Source code
- Function (biology)
- Computational biology