DESCRIPTION

Package: CAMPP2
Type: Package
Title: CAncer bioMarker Prediction Pipeline 2 (CAMPP2)
Version: 0.99.0
Authors@R: c(
    person("Tom, Nikola", email = "ntom@cancer.dk", role = c("aut")),
    person("Nourbakhsh, Mona", email = "mon@cancer.dk", role = c("aut")),
    person("Terkelsen, Thilde", role=c("aut")),
    person("Bechgaard, Mathilde Wismann", email = "mathilde@bechgaard.dk", role = c("aut")),
    person("Tiberti, Matteo", email = "tiberti@cancer.dk", role = c("cre", "aut")),
    person("Papaleo, Elena", email = "elenap@cancer.dk", role = c("aut")))
Description: The CAncer bioMarker Prediction Pipeline2 (CAMPP2) is a simple
  bioinformatics tool intended to automatize identification of potential
  diagnostic and prognostic cancer biomarkers. The pipeline is versatile
  and may be used for analysis of a variety of quantitative biological
  data from high throughput platforms, including genes, proteins, small
  RNAs, lipids and glycans. CAMPP2 currently supports:
  replacing missing values, data normalization, batch correction, 
  distributional check, dimensionality reduction, clustering, 
  differential expression/abundance analysis, LASSO/Elastic Net regression,
  random forest, and visualisations
License: GPL (>= 3)
Encoding: UTF-8
LazyData: true
BugReports: https://github.com/ELELAB/CAMPP2/issues
RoxygenNote: 7.2.3
biocViews: GeneExpression, DifferentialExpression, Annotation, Clustering, QualityControl, RNASeq, Metabolomics, SystemsBiology, Software, Transcription, Normalization, PrincipalComponent, Lipidomics, Visualization, Regression, DimensionReduction
Depends: R (>= 4.1.0)
Imports:
  ComplexHeatmap,
  FactoMineR,
  VennDiagram,
  biomaRt,
  caret,
  doMC,
  edgeR,
  factoextra,
  fitdistrplus,
  ggplot2,
  ggrepel,
  glmnet,
  grid,
  impute,
  limma,
  mclust,
  nnet,
  pROC,
  parallel,
  pcaMethods,
  randomForest,
  rio,
  rngtools,
  squash,
  statmod,
  sva,
  varSelRF,
  viridis,
  viridisLite,
  zeallot
exports:
VignetteBuilder: knitr
Suggests: BiocStyle, knitr, rmarkdown