Tunable Simulation of B- And T-Cell Receptor Repertoires
c(
person("Cédric R.", "Weber", email = "cedric.weber@bsse.ethz.ch",role = c("aut", "cre")),
person("Victor", "Greiff", email = "victor.greiff@medisin.uio.no",role = "aut"))
Cédric R. Weber [aut, cre],
Victor Greiff [aut]
Simulate full B-cell and T-cell receptor repertoires using an in silico
recombination process that includes a wide variety of tunable parameters to introduce noise and biases.
Additional post-simulation modification functions allow the user to implant motifs or codon biases as
well as remodeling sequence similarity architecture. The output repertoires contain records of all
relevant repertoire dimensions and can be analyzed using provided repertoire analysis functions.
Preprint is available at bioRxiv (Weber et al., 2019 <doi:10.1101/759795>).
poweRlaw, stringdist, Biostrings, igraph, stringr, data.table,
plyr, reshape2, ggplot2, grid, ggthemes, RColorBrewer, Metrics,
repmis

CSS Layouts (Grid and Flexbox) Implementation for R/Shiny
person("Pedro", "Silva", email = "pedrocoutinhosilva@gmail.com",
role = c("aut", "cre"))
Allows easy creation of CSS layouts (grid and flexbox)
directly from R without added CSS.
shiny, htmltools, magrittr, stringi, glue, yaml

testthat (>= 3.0.0), rvest, devtools, covr, rmarkdown, knitr

Functions to analyse missing value mechanisms and to impute data sets in the context of bottom-up MS-based proteomics.
R (>= 3.3.0), Iso, stats, truncnorm, imputeLCMD

R (>= 3.3.0), Iso, stats, truncnorm, norm

R (>= 3.3.0), Iso, stats, truncnorm, norm, missForest, missMDA

Quantification of Population-Level Impact of Vaccination
person(given = "Arseniy",
family = "Khvorov",
role = c("aut", "cre"),
email = "khvorov45@gmail.com")
Implements the compartment model from Tokars (2018)
<doi:10.1016/j.vaccine.2018.10.026>. This enables quantification of
population-wide impact of vaccination against vaccine-preventable
diseases such as influenza.
Rcpp, tibble, dplyr, rlang, glue, lubridate, magrittr

Mechanical Loading Prediction Through Accelerometer Data
person(given = "Lucas",
family = "Veras",
role = c("aut", "cre"),
email = "lucasdsveras@gmail.com",
comment = c(ORCID = "0000-0003-0562-5803"))
Functions to read, process and analyse accelerometer
data related to mechanical loading variables. This package is
developed and tested for use with raw accelerometer data from
triaxial 'ActiGraph' <https://actigraphcorp.com> accelerometers.
glue, lubridate, lvmisc, pillar, pracma, purrr, Rcpp, rlang
(>= 0.4.6), signal, stringr, tibble, toOrdinal, utils, vroom