generateReport

generateReport produces a report html for project

generateReport(
  data,
  dir,
  target_sp = c("Caenorhabditis elegans", "Caenorhabditis briggsae",
    "Caenorhabditis tropicalis"),
  profile = "nematode"
)

Arguments

data

a checked dataframe generated from the procPhotos function.

dir

The path to the base fulcrum directory, report html will be saved as reports/sampleReport_general.html or reports/sampleReport.html

target_sp

vector of target species for species id checks. Default target species names are: Caenorhabditis elegans,Caenorhabditis briggsae, Caenorhabditis tropicalis. generateReport currently supports up to three target species for use with the "general" profile.

profile

set to "nematode" by default. This will use nematode specific reporting standard to the Andersen Lab. Set to "general" to use the non-nematode specific reporting.

Value

a report as an html file