NetRep - Permutation Testing Network Module Preservation Across Datasets

Functions for assessing the replication/preservation of a network module's topology across datasets through permutation testing; Ritchie et al. (2015) <doi: 10.1016/j.cels.2016.06.012>.

Last updated 4 years ago

openblascpp

6.84 score 12 stars 3 dependents 16 scripts 464 downloads

ukbnmr - Removal of Unwanted Technical Variation from UK Biobank NMR Metabolomics Biomarker Data

A suite of utilities for working with the UK Biobank <https://www.ukbiobank.ac.uk/> Nuclear Magnetic Resonance spectroscopy (NMR) metabolomics data <https://biobank.ndph.ox.ac.uk/showcase/label.cgi?id=220>. Includes functions for extracting biomarkers from decoded UK Biobank field data, removing unwanted technical variation from biomarker concentrations, computing an extended set of lipid, fatty acid, and cholesterol fractions, and for re-deriving composite biomarkers and ratios after adjusting data for unwanted biological variation. For further details on methods see Ritchie SC et al. Sci Data (2023) <doi:10.1038/s41597-023-01949-y>.

Last updated 4 months ago

5.82 score 33 stars 6 scripts 710 downloads

BootstrapQTL - Bootstrap cis-QTL Method that Corrects for the Winner's Curse

Identifies genome-related molecular traits with significant evidence of genetic regulation and performs a bootstrap procedure to correct estimated effect sizes for over-estimation present in cis-QTL mapping studies (The "Winner's Curse"), described in Huang QQ *et al.* 2018 <doi: 10.1093/nar/gky780>.

Last updated 4 years ago

3.48 score 6 stars 4 scripts 286 downloads