display_plate_qpcr: Display qPCR plate plan with sample_id, target_id, prep_type...

In ewallace/tidyqpcr: Quantitative PCR Analysis with the Tidyverse

Display qPCR plate plan with sample_id, target_id, prep_type per well

Description

Display qPCR plate plan with sample_id, target_id, prep_type per well

Usage

display_plate_qpcr(plate)

display_plate_sample_id(plate)

display_plate_target_id(plate)

Arguments

plate

tibble with variables well_col, well_row, sample_id, target_id, prep_type. Output from label_plate_rowcol.

Value

ggplot object; major output is to plot it

Functions

• display_plate_sample_id(): Display qPCR plate plan with sample_id and prep type only

• display_plate_target_id(): Display qPCR plate plan with target_id only

See Also

Other plate creation functions: create_blank_plate(), create_colkey_4diln_2ctrl_in_24(), create_colkey_6_in_24(), create_colkey_6diln_2ctrl_in_24(), create_rowkey_4_in_16(), create_rowkey_8_in_16_plain(), display_plate(), display_plate_value(), label_plate_rowcol(), make_row_names_echo1536(), make_row_names_lc1536()

Examples

# create basic 6-well plate
basic_plate <- 
    label_plate_rowcol(plate = create_blank_plate(well_row = LETTERS[1:2],
                                                  well_col = 1:3),
                       rowkey = tibble(well_row = factor(LETTERS[1:2]),
                                       target_id = c("T_A","T_B")),
                       colkey = tibble(well_col = factor(1:3),
                                       sample_id = c("S_1","S_2", "S_3"),
                                       prep_type = "+RT"))

# display basic plate
display_plate_qpcr(basic_plate)

# create full 384 well plate
full_plate <- label_plate_rowcol(create_blank_plate(), 
                                  create_rowkey_8_in_16_plain(target_id = c("T_1", "T_2",
                                                                            "T_3", "T_4", 
                                                                            "T_5", "T_6",
                                                                            "T_7", "T_8")), 
                                  create_colkey_6diln_2ctrl_in_24() |> 
                                      dplyr::mutate(sample_id = paste0(dilution_nice,
                                                                       "_",
                                                                       tech_rep)))

# display full plate
display_plate_qpcr(full_plate)

# display basic plate, sample_id and prep_type only
display_plate_sample_id(basic_plate)

  
# display basic plate, target_id only
display_plate_target_id(basic_plate)

# change fill of tiles to your needs, for example
library(ggplot2)
display_plate_target_id(basic_plate) + 
  scale_fill_brewer(type = "qual")

ewallace/tidyqpcr documentation built on June 5, 2024, 10:04 a.m.