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# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
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cff-version: 1.2.0
message: 'To cite package "DaMiRseq" in publications use:'
type: software
license: GPL-2.0-or-later
title: 'DaMiRseq: Data Mining for RNA-seq data: normalization, feature selection and
  classification'
version: 2.17.0
doi: 10.1093/bioinformatics/btx795
abstract: The DaMiRseq package offers a tidy pipeline of data mining procedures to
  identify transcriptional biomarkers and exploit them for both binary and multi-class
  classification purposes. The package accepts any kind of data presented as a table
  of raw counts and allows including both continous and factorial variables that occur
  with the experimental setting. A series of functions enable the user to clean up
  the data by filtering genomic features and samples, to adjust data by identifying
  and removing the unwanted source of variation (i.e. batches and confounding factors)
  and to select the best predictors for modeling. Finally, a "stacking" ensemble learning
  technique is applied to build a robust classification model. Every step includes
  a checkpoint that the user may exploit to assess the effects of data management
  by looking at diagnostic plots, such as clustering and heatmaps, RLE boxplots, MDS
  or correlation plot.
authors:
- family-names: Chiesa
  given-names: Mattia
  email: mattia.chiesa@cardiologicomonzino.it
- family-names: Piacentini
  given-names: Luca
  email: luca.piacentini@cardiologicomonzino.it
preferred-citation:
  type: article
  title: 'DaMiRseq - an R/Bioconductor package for data mining of RNA-Seq data: normalization,
    feature selection and classification'
  authors:
  - family-names: Chiesa
    given-names: Mattia
    email: mattia.chiesa@cardiologicomonzino.it
  - family-names: Colombo
    given-names: Gualtiero I.
  - family-names: Piacentini
    given-names: Luca
    email: luca.piacentini@cardiologicomonzino.it
  journal: Bioinformatics
  volume: '34'
  issue: '8'
  year: '2018'
  doi: 10.1093/bioinformatics/btx795
  start: 1416-1418
repository: https://bioc.r-universe.dev
date-released: '2021-11-20'
contact:
- family-names: Chiesa
  given-names: Mattia
  email: mattia.chiesa@cardiologicomonzino.it