To decompose symmetric matrices such as brain connectivity matrices so that one can extract sparse latent component matrices and also estimate mixing coefficients, a blind source separation (BSS) method named LOCUS was proposed in Wang and Guo (2023) <arXiv:2008.08915>. For brain connectivity matrices, the outputs correspond to sparse latent connectivity traits and individual-level trait loadings.

Publication-ready regional gene locus plots similar to those produced by the web interface 'LocusZoom' <https://my.locuszoom.org>, but running locally in R. Genetic or genomic data with gene annotation tracks are plotted via R base graphics, 'ggplot2' or 'plotly', allowing flexibility and easy customisation including laying out multiple locus plots on the same page. It uses the 'LDlink' API <https://ldlink.nih.gov/?tab=apiaccess> to query linkage disequilibrium data from the 1000 Genomes Project and can overlay this on plots.

Read and write access to PNG image files using the LodePNG
    library. The package has no external dependencies.

Genome-wide association (GWAS) analyses
  of a biomarker that account for the limit of detection.

Impute observed values below the limit of detection (LOD) via
    censored likelihood multiple imputation (CLMI) in single-pollutant
    models, developed by Boss et al (2019) <doi:10.1097/EDE.0000000000001052>.
    CLMI handles exposure detection limits that may change throughout the course
    of exposure assessment. 'lodi' provides functions for imputing and
    pooling for this method.

Tools to fit linear regression model to data while taking into account covariates with lower limit of detection (LOD).

Data sets for Chirok Han (2022, ISBN:979-11-303-1497-6,
  "Lectures on Econometrics"). Students, teachers, and self-learners will
  find the data sets essential for replicating the results in the book.

Estimate model parameters to determine whether two compounds have synergy, antagonism, or Loewe's Additivity.

Logger to keep track of informational events and errors useful for debugging.