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olisansonwu
diyar:Record Linkage and Epidemiological Case Definitions in 'R'
An R package for iterative and batched record linkage, and applying epidemiological case definitions. 'diyar' can be used for deterministic and probabilistic record linkage, or multistage record linkage combining both approaches. It features the implementation of nested match criteria, and mechanisms to address missing data and conflicting matches during stepwise record linkage. Case definitions are implemented by assigning records to groups based on match criteria such as person or place, and overlapping time or duration of events e.g. sample collection dates or periods of hospital stays. Matching records are assigned a unique group ID. Index and duplicate records are removed or further analyses as required.
Maintained by Olisaeloka Nsonwu. Last updated 3 months ago.
6 stars 4.77 score 33 scripts
bioc
combi:Compositional omics model based visual integration
This explorative ordination method combines quasi-likelihood estimation, compositional regression models and latent variable models for integrative visualization of several omics datasets. Both unconstrained and constrained integration are available. The results are shown as interpretable, compositional multiplots.
Maintained by Stijn Hawinkel. Last updated 5 months ago.
metagenomicsdimensionreductionmicrobiomevisualizationmetabolomics
1 stars 4.48 score 7 scripts
ingmbioinfo
combiroc:Selection and Ranking of Omics Biomarkers Combinations Made Easy
Provides functions and a workflow to easily and powerfully calculating specificity, sensitivity and ROC curves of biomarkers combinations. Allows to rank and select multi-markers signatures as well as to find the best performing sub-signatures, now also from single-cell RNA-seq datasets. The method used was first published as a Shiny app and described in Mazzara et al. (2017) <doi:10.1038/srep45477> and further described in Bombaci & Rossi (2019) <doi:10.1007/978-1-4939-9164-8_16>, and widely expanded as a package as presented in the bioRxiv pre print Ferrari et al. <doi:10.1101/2022.01.17.476603>.
Maintained by Riccardo L. Rossi. Last updated 9 months ago.
5 stars 3.48 score 12 scripts