platetools: Tools and Plots for Multi-Well Plates

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Collection of functions for working with multi-well microtitre plates, mainly 96, 384 and 1536 well plates.

Author
Scott Warchal [aut, cre]
Date of publication
2016-10-05 14:37:45
Maintainer
Scott Warchal <s.warchal@sms.ed.ac.uk>
License
MIT + file LICENSE
Version
0.0.2

View on CRAN

Man pages

b_grid
Plots multiple b-scored normalised platemaps
bhit_map
Platemap to identify 'hits' following a B-score normalisation
b_map
Plots a heatmap of b-score normalised values in a plate...
b_score
2 way median polish
check_plate_input
checks plate input for dodgy well plate combinations
dist_map
Plots distributions per well in a plate layout
fill_plate
Fill in missing wells
hit_grid
Plots multiple platemaps with and identifies hits
hit_map
Platemap to identify 'hits' in a screen
is_1536
internal 1536 plate function for plate_map
list_to_dataframe
Converts list to a dataframe in a sensible way
med_smooth
2-way median smooth
missing_wells
Returns wells that are missing from a complete plate
num_to_well
Converts numbers to well labels
pc_grid
Plots multiple platemaps as a heatmap of the first principal...
pchit_grid
Plots multiple heatmaps identifying hits from the first...
pchit_map
Plots a heatmap identifying hits from the first principal...
pc_map
Principal component heatmap in a plate layout
plate_effect
Two way-median smooth on a plate map
plate_map
creates dataframe of row,column,data from wellID and data
plate_map_grid
creates dataframe of row, column, plate_id from data...
plate_map_grid_scale
creates dataframe of row, column, plate_id from data...
plate_map_multiple
row, column for multiple features
plate_map_scale
creates dataframe of row, column, and scaled data from well...
plate_matrix
plate layout matrix from well IDs
plt1536
ggplot plate object
plt384
ggplot plate object
plt96
ggplot plate object
raw_grid
Plots multiple platemaps with heatmap of raw values
raw_map
Plots a platemap with heatmap of raw values
read_map
Annotates dataframe with metadata in a platemap matrix
readmap_data
example data in a plate map form
rotate_plate
rotates matrix by 180 degrees
well_to_num
Converts well labels to numbers
z_grid
Plots multiple platemaps with heatmap of scaled values
z_map
Plots a platemap with heatmap of scaled values

Files in this package

platetools
platetools/tests
platetools/tests/testthat.R
platetools/tests/testthat
platetools/tests/testthat/test-grid_plots.R
platetools/tests/testthat/test-plot_wrapper.R
platetools/tests/testthat/test-missing_wells.R
platetools/tests/testthat/test-fill_plate.R
platetools/tests/testthat/test-read_map.R
platetools/tests/testthat/test-rotate_plate.R
platetools/tests/testthat/test-basic_plots.R
platetools/tests/testthat/test-num_to_well.R
platetools/tests/testthat/test-plate_effects.R
platetools/tests/testthat/test-plate_map.R
platetools/tests/testthat/test-well_to_num.R
platetools/tests/testthat/test-plate_matrix.R
platetools/tests/testthat/test-med_smooth.R
platetools/NAMESPACE
platetools/data
platetools/data/readmap_data.rda
platetools/R
platetools/R/plot_wrapper.R
platetools/R/med_smooth.R
platetools/R/raw_grid.R
platetools/R/pc_map.R
platetools/R/pc_grid.R
platetools/R/rotate_plate.R
platetools/R/plate_matrix.R
platetools/R/dist_map.R
platetools/R/z_map.R
platetools/R/missing_wells.R
platetools/R/b_grid.R
platetools/R/data.R
platetools/R/z_grid.R
platetools/R/well_to_num.R
platetools/R/b_map.R
platetools/R/hit_grid.R
platetools/R/fill_plate.R
platetools/R/check_plate_input.R
platetools/R/bhit_map.R
platetools/R/read_map.R
platetools/R/plate_map.R
platetools/R/hit_map.R
platetools/R/num_to_well.R
platetools/R/raw_map.R
platetools/R/pchit_grid.R
platetools/R/pchit_map.R
platetools/MD5
platetools/DESCRIPTION
platetools/man
platetools/man/pchit_grid.Rd
platetools/man/z_grid.Rd
platetools/man/is_1536.Rd
platetools/man/z_map.Rd
platetools/man/plate_map_scale.Rd
platetools/man/pchit_map.Rd
platetools/man/missing_wells.Rd
platetools/man/rotate_plate.Rd
platetools/man/b_score.Rd
platetools/man/pc_grid.Rd
platetools/man/plate_map_multiple.Rd
platetools/man/plate_map_grid_scale.Rd
platetools/man/plate_effect.Rd
platetools/man/med_smooth.Rd
platetools/man/num_to_well.Rd
platetools/man/b_grid.Rd
platetools/man/raw_grid.Rd
platetools/man/fill_plate.Rd
platetools/man/hit_grid.Rd
platetools/man/plt1536.Rd
platetools/man/list_to_dataframe.Rd
platetools/man/bhit_map.Rd
platetools/man/plate_map_grid.Rd
platetools/man/plate_matrix.Rd
platetools/man/well_to_num.Rd
platetools/man/plate_map.Rd
platetools/man/plt384.Rd
platetools/man/raw_map.Rd
platetools/man/read_map.Rd
platetools/man/plt96.Rd
platetools/man/hit_map.Rd
platetools/man/readmap_data.Rd
platetools/man/pc_map.Rd
platetools/man/dist_map.Rd
platetools/man/check_plate_input.Rd
platetools/man/b_map.Rd
platetools/LICENSE