This package is a compilation of functions to analyze orthomosaic images from research fields. To prepare the image it first allows to crop the image, remove soil and weeds and rotate the image. The package also builds a plot shapefile in order to extract information for each plot to evaluate different wavelengths, vegetation indices, stand count, canopy percentage, and plant height.
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> **Attention:** The plots are identified in ascending order from left to right and top to bottom being evenly spaced and distributed inside the selected area independent of alleys.
> To identify the plots the function **`fieldMap`** can be used to include an specific plot *ID* from an external table file. The column **PlotName** in the output will be the new ID. You can dowload an example of an ID table here: [DataTable.csv](https://drive.google.com/open?id=18YE4dlSY1Czk2nKeHgwd9xBX8Yu6RCl7). wzxhzdk:8
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> *Sugestion:* This function could also be used to build an index to remove soil or weeds. First it is necessary to identify the threshold to differentiate soil from the plant material. At the example below (B), all values above 0.7 were considered as soil and further removed using **`fieldMask`** (C & D). wzxhzdk:12
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> To refine stand count, we can further eliminate weeds (small plants) or outlying branches from the output using the parameter *min Size*. The following example uses an image available to download here:[EX_StandCount.tif](https://drive.google.com/open?id=1PzWcIsYQMxgEozR5HHUhT0RKcstMOfSk) wzxhzdk:14
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