viper - Virtual Inference of Protein-activity by Enriched Regulon analysis
Inference of protein activity from gene expression data, including the VIPER and msVIPER algorithms
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systemsbiologynetworkenrichmentgeneexpressionfunctionalpredictiongeneregulation
7.64 score 7 dependents 569 scripts 2.0k downloadsgenomicInstability - Genomic Instability estimation for scRNA-Seq
This package contain functions to run genomic instability analysis (GIA) from scRNA-Seq data. GIA estimates the association between gene expression and genomic location of the coding genes. It uses the aREA algorithm to quantify the enrichment of sets of contiguous genes (loci-blocks) on the gene expression profiles and estimates the Genomic Instability Score (GIS) for each analyzed cell.
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systemsbiologygeneexpressionsinglecell
4.38 score 6 stars 8 scripts 418 downloadsdiggit - Inference of Genetic Variants Driving Cellular Phenotypes
Inference of Genetic Variants Driving Cellullar Phenotypes by the DIGGIT algorithm
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systemsbiologynetworkenrichmentgeneexpressionfunctionalpredictiongeneregulation
3.30 score 4 scripts 472 downloadsGSE103322 - GEO accession data GSE103322 as a SingleCellExperiment
Single cell RNA-Seq data for 5902 cells from 18 patients with oral cavity head and neck squamous cell carcinoma available as GEO accession [GSE103322] (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE103322). GSE103322 data have been parsed into a SincleCellExperiment object available in ExperimentHub.
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experimentdatagenomednaseqdatarnaseqdataexpressiondatahomo_sapiens_datacancerdatasinglecelldatageoexperimenthubdatapkg
3.30 scorediggitdata - Example data for the diggit package
This package provides expression profile and CNV data for glioblastoma from TCGA, and transcriptional and post-translational regulatory networks assembled with the ARACNe and MINDy algorithms, respectively.
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experimentdatacancerdatapkg
3.30 score 5 scripts