Section: New Software and Platforms

MPAGenomics

Multi-Patient Analysis of Genomic markers

Keywords: Segmentation - Genomics - Marker selection - Biostatistics

Scientific Description

MPAgenomics is an R package for multi-patients analysis of genomics markers. It enables to study several copy number and SNP data profiles at the same time. It offers wrappers from commonly used packages to offer a pipeline for beginners in R. It also proposes a special way of choosing some crucial parameters to change some default values which were not adapted in the original packages. For multi-patients analysis, it wraps some penalized regression methods implemented in HDPenReg.

Functional Description

MPAgenomics provides functions to preprocess and analyze genomic data. It is devoted to: (i) efficient segmentation and (ii) genomic marker selection from multi-patient copy number and SNP data profiles.

• Participants: Quentin Grimonprez, Guillemette Marot and Samuel Blanck

• Contact: Guillemette Marot

• URL: https://cran.r-project.org/web/packages/MPAgenomics/index.html