is.get.data.output: Check if data set can be used as entry for 'get.ggplot' and...

In priviere/shinemas2R_deprecated: An R package to visualize outputs from the data base Seed History and Network Management System (SHiNeMaS)

Description

is.get.data.output check if data set can be used as entry for get.ggplot and get.table. This is useful when the user do not have SHiNeMaS but wish to use the other functions of the package.

Usage

is.get.data.output(data, shinemas2R.object = "network")

Arguments

data	the date set to check
shinemas2R.object	The type of shinemas2R.object to check. Possible values are: "network" "data-classic-seed-lots" "data-classic-relation" "data-S-seed-lots" "data-S-relation" "data-SR-seed-lots" "data-SR-relation"

Details

Formats of the different shinemas2R.object:

• "network" It must be a list of four elements: "network", "network.query", "network.info" and "Mdist" (see get.data for more details) with the followinf format:

  • "network" must be a network object. It can be NULL. Vertex attributes can be put on "year", "person", "germplasm", germplasm.type" and "sex". Edge attributes can be put on "relation" and "generation"

  • "network.query" must be a dataframe. It can be NULL. It has the following columns: son_species, son_project, son, son_germplasm, son_person, son_year, son_germplasm_type which are factors, son_alt, son_long, son_lat, son_total_generation_nb, son_local_generation_nb which are numerics, son_generation_confidence, son_comments which are characters,father_species, father_project, son, father_germplasm, father_person, father_year, father_germplasm_type which are factors, father_alt, father_long, father_lat, father_total_generation_nb, father_local_generation_nb which are numerics, father_generation_confidence, father_comments which are characters, reproduction_id which is character, reproduction_method_name, is_male, block which are factors, selection_id which is character, selection_person which is factor, mixture_id, diffusion_id which are character, relation_year_start, relation_year_end which are factors.

  • "network.info" must be a dataframe. It can be NULL. It has the following columns: sl, which is a character; alt, long and lat which are numeric; diffusion, id.diff, reproduction, mixture, cross.info, germplasm, person and year, which are factor. Possible values for diffusion are for EN: "give", "receive", "give-receive" or NA. Possible values for reproduction are for EN: "sow", "harvest", "harvest-sow" or NA. Possible values for selection are for EN: selection or NA. Possible values for mixture are for EN: mixture or NA.

  • "Mdist" must be a square matrix with the same columns and rows names.

• "data-classic-seed-lots"

• "data-classic-relation"

• "data-S-seed-lots"

• "data-S-relation"

• "data-SR-seed-lots"

• "data-SR-relation"

Value

The function returns a data set with the corresponding shinemas2R.object attributes or an error.

Author(s)

Pierre Riviere

See Also

encrypt.data, translate.data,, format.data, get.ggplot, get.table

Examples

# See the vignette and appendix D

priviere/shinemas2R_deprecated documentation built on May 8, 2019, 1:21 p.m.