pathMED - Scoring Personalized Molecular Portraits
PathMED is a collection of tools to facilitate precision medicine studies with omics data (e.g. transcriptomics). Among its funcionalities, genesets scores for individual samples may be calculated with several methods. These scores may be used to train machine learning models and to predict clinical features on new data. For this, several machine learning methods are evaluated in order to select the best method based on internal validation and to tune the hyperparameters. Performance metrics and a ready-to-use model to predict the outcomes for new patients are returned.
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pathwaysclassificationfeatureextractiontranscriptomics
4.78 score 5 stars 2 scripts 180 downloadsmCSEA - Methylated CpGs Set Enrichment Analysis
Identification of diferentially methylated regions (DMRs) in predefined regions (promoters, CpG islands...) from the human genome using Illumina's 450K or EPIC microarray data. Provides methods to rank CpG probes based on linear models and includes plotting functions.
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immunooncologydifferentialmethylationdnamethylationepigeneticsgeneticsgenomeannotationmethylationarraymicroarraymultiplecomparisontwochannel
4.64 score 22 scripts 582 downloadsmCSEAdata - Data package for mCSEA package
Data objects necessary to some mCSEA package functions. There are also example data objects to illustrate mCSEA package functionality.
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homo_sapiens_datamethylationarraydatamicroarraydataexperimentdatadatapkg
4.08 score 1 dependents 6 scripts