makeCGGraphs: Write plots of characters for common garden experiments 1, 2,...

In stuartWagenius/echinaceaLab: useful functions for the Echinacea Project

Write plots of characters for common garden experiments 1, 2, and 679

Description

This function will take all data collected from a select common garden experiment in a year and output summary plots - either boxplots or histograms - of the plant characters in that garden. Use it to diagnose any blatant data issues and to print for folks to see the work they did!

Usage

makeCGGraphs(mf, hf, yr, box.plot = FALSE, write.pdf = FALSE, write.path = NA)

Arguments

mf	path to the measure form for a given common garden experiment, generally in cgdata repo (e.g. "summer2019/p1MeasureData/2019MeasureExPt1_2019-08-27.txt")
hf	path to the head form for the same common garden experiment, generally in cgdata repo (e.g. "summer2019/p1MeasureData/2019ExPt1HeadSubform_2019-09-27.txt")
yr	the year the data in the input file was recorded (e.g. 2019, as above)
box.plot	logical: if TRUE, makeCGGraphs will output boxplots of plant characters. if FALSE, makeCGGraphs will output histograms of plant characters.
write.pdf	logical: if TRUE, function will output a pdf that will save to write.path (good for printing!!!) if FALSE, function will output the plots into the R viewer.
write.path	path to the folder you want to output the write.pdfs to

Details

function will not work if input fields are spelled or capitalized incorrectly. They must be: bslLongLfCm, caulLongLfCm, bslLfCt, bslRosetteCt, flRosetteCt, (in mf) and headHeight (in hf). If they are spellect incorrectly, read the .txt into R, rename files, and save it as a .csv. p679 are 3 different plots in real life, but are treated as one by this function. They should also share a Pendragon measuring form. mf and hf are REQUIRED fields. If there are no head records for a plot (likely only in p679), make an empty hf and input that.

Examples

## Not run: makeCGGraphs("summer2019/p679MeasureData/2019MeasureHybExPt_2019-08-07.txt",
"summer2019/p679MeasureData/2019HybExPtHeadSubform_2019-08-07.txt",
2019, box.plot = F, write.pdf = T, write.path = "summer2018/recheckFunctionTests")
## End(Not run)

## Not run: makeCGGraphs("summer2019/p1MeasureData/2019MeasureExPt1_2019-08-27.txt",
"summer2019/p1MeasureData/2019ExPt1HeadSubform_2019-09-27.txt",
2019, box.plot = T, write.pdf = F)
## End(Not run)

stuartWagenius/echinaceaLab documentation built on April 13, 2025, 5:22 a.m.