NanoString Quality Control Dashboard
Plot quality-control metrics and thresholds of a "nacho" object
autoplot generic
Annotate a "nacho" object for outliers
Deploy (copy) the shiny application to the specified directory
Produce a "nacho" object from RCC NanoString files
NACHO: NanoString Quality Control Dashboard
(re)Normalise a "nacho" object
Print method for "nacho" object
Render a HTML report of a "nacho" object
Visualise quality-control metrics of a "nacho" object
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.
Useful links