reordered function arguments for easier copy-pasting between functions. Removed a few :: references already.
Updated version number. Typo spotted by Herve Pages.
Typo spotted by Herve Pages.
date changed
Removed all occurences of GOexpress::
Removed all :: package references in code and documentation.
Removed last missed :: reference.
Reinserted a line deleted by mistake.
Added an import statement for a colormap for the heatmap function. This lack of import was not detected before because the package was referenced using ::
Added a library loading in an example to access a function changing the colormap, otherwise the example fails the CMD check.
gene-by-sample to respect the convention rows by columns.
File affected by two corrections for Bioconductor. Gene-by-samples and :: package reference.
gene-by-sample correction, plus more details about the experiment and how the expression levels were obtained, filtered and normalised.
Correction for bioconductor: replaced inaccurate expressions "biomart database"
replaced textit tag by emph tag for Sweave
Correction of the "tutorial" sentence. Used User's Guide throughout the document. Removed paragraph to install from GitHub. Corrected Bioconductor mailing list reference.
Removed non-ASCII copyright character.
Section titles in the UserGuide
all references to identifiers were checked and feature identifier was used to cover both Ensembl gene and probesets.
remove indentation for proper function closing bracket.