NanoString nCounter data are gene expression assays where there is no need for the use of enzymes or amplification protocols and work with fluorescent barcodes (Geiss et al. (2018) <doi:10.1038/nbt1385>). Each barcode is assigned a messenger-RNA/micro-RNA (mRNA/miRNA) which after bonding with its target can be counted. As a result each count of a specific barcode represents the presence of its target mRNA/miRNA. 'NACHO' (NAnoString quality Control dasHbOard) is able to analyse the exported NanoString nCounter data and facilitates the user in performing a quality control. 'NACHO' does this by visualising quality control metrics, expression of control genes, principal components and sample specific size factors in an interactive web application.
Version: 2.0.6 Depends: R (≥ 3.6.0) Imports: utils, data.table, ggplot2 (≥ 3.3.0), ggforce (≥ 0.3.1), ggrepel (≥ 0.8.1), knitr (≥ 1.25), rmarkdown (≥ 1.16), shiny (≥ 1.4.0), shinyWidgets (≥ 0.4.9) Suggests: roxygen2 (≥ 7.2.0), testthat (≥ 2.2.1), covr (≥ 3.3.2), Biobase, GEOquery, limma Published: 2024-01-12 DOI: 10.32614/CRAN.package.NACHO Author: Mickaël Canouil [aut, cre], Roderick Slieker [aut], Gerard Bouland [aut] Maintainer: Mickaël Canouil <pro at mickael.canouil.dev> BugReports: https://github.com/mcanouil/NACHO/issues License: GPL-3 URL: https://github.com/mcanouil/NACHO/, https://m.canouil.dev/NACHO/ NeedsCompilation: no SystemRequirements: pandoc (>= 1.14), pandoc-citeproc Citation: NACHO citation info Materials: README, NEWS In views: Omics CRAN checks: NACHO results Documentation: Downloads: Linking:Please use the canonical form https://CRAN.R-project.org/package=NACHO to link to this page.
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