It seeds collection of data and utilties for pQTL analysis. At this early stage, the repository contains 1. a number of protein panels, linking functions for cis/trans classification, 2D Manhattan plots, 3D-plotly plots, forest plots among others availale from R/gap; 2. query on genes, regions, and SNPs via PhenoScanner, adding functionality to check for replication across platforms; 3. downstream analysis such as colocalization, pQTL-Mendelian Randomization via TwoSampleMR, linkage through UniProt IDs to other resources; 4. showcase of Bioconductor packages and snakemake workflow.
Aspects involving data from ongoing project have been simplified to use files in
~/pQTLtools/testswhich can be made public when appropriate.
The latest version of pQTLtools can be installed as usual:
Dependencies are detailed in the DECRIPTION file of the package at GitHub.
A web-driven documentation is now available.