SLAPenrich specifications

Information


Unique identifier OMICS_13952
Name SLAPenrich
Alternative name Sample Level Analysis of Pathway Alteration Enrichments
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License MIT License
Computer skills Advanced
Version 0.1
Stability Stable
Requirements
HGNChelper, igraph, pheatmap, poibin, stringr, qvalue, biomaRt
Maintained Yes

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Versioning


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Documentation


Maintainer


  • person_outline Francesco Iorio

Publication for Sample Level Analysis of Pathway Alteration Enrichments

SLAPenrich citation

library_books

Widespread Post transcriptional Attenuation of Genomic Copy Number Variation in Cancer

2017
Cell Syst
PMCID: 5660600
PMID: 29032074
DOI: 10.1016/j.cels.2017.08.013

[…] efore with a gaussian mixture model with 2 mixture components. Enrichment analysis of amplifications in protein complexes in tumour samples with high protein attenuation potential was performed using SLAPenrich ().A gene expression signature of the sample attenuation potential was calculated by systematically correlating the samples attenuation potential with each gene in the transcriptomics data- […]

SLAPenrich institution(s)
European Molecular Biology Laboratory - European Bioinformatics Institute, Wellcome Genome Campus, Cambridge, UK; Wellcome Trust Sanger Institute, Wellcome Genome Campus, Cambridge, UK; GlaxoSmithKline, Stevenage Herts, UK; Joint Research Centre for Computational Biomedicine (JRC-COMBINE), RWTH Aachen University, Faculty of Medicine, MTI2 Wendlingweg 2, Aachen, Germany; OpenTargets, Wellcome Genome Campus, Cambridge, UK
SLAPenrich funding source(s)
Supported by OpenTargets (Projects OpenTargets15 and OpenTargets16).

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