Rcolombos (version 2.0.2)

quick_search: This method mimics the quick_search functionality of Colombos. It takes a string containg the nickname for the selected organism and a vector of string representing the genes of interest for the specified organism and returns a list containing the locustags (gene_names), contrasts and M-values for the current selection.

Description

This method mimics the quick_search functionality of Colombos. It takes a string containg the nickname for the selected organism and a vector of string representing the genes of interest for the specified organism and returns a list containing the locustags (gene_names), contrasts and M-values for the current selection.

Usage

quick_search(organism = "ecoli", genes, geneNames = FALSE)

Arguments

organism

A character containing the organism id: use listOrganisms to display the available organisms.

genes

A vector of strings representing the genes of interest.

geneNames

boolean if == FALSE (default) returns the locustag otherwise the gene_name for the selected genes.

Value

A data.frame containing locustag (gene_names), contrasts and M-values for the current organism and genes.

References

http://colombos.net

Examples

## Not run: 
#  library("Rcolombos")
#  my_module <- quick_search(organism="ecoli",
#                      genes=c("b0400","b2805","b0567"),
#                      geneNames=FALSE)
#  heatmap(as.matrix(my_module), col=terrain.colors(15))
# ## End(Not run)