platetools: Tools and Plots for Multi-Well Plates

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

AuthorScott Warchal [aut, cre]
Date of publication2016-10-05 14:37:45
MaintainerScott Warchal <s.warchal@sms.ed.ac.uk>
LicenseMIT + file LICENSE
Version0.0.2

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

Functions

b_grid Man page
bhit_map Man page
b_map Man page
b_score Man page
check_plate_input Man page
dist_map Man page
fill_plate Man page
hit_grid Man page
hit_map Man page
is_1536 Man page
list_to_dataframe Man page
med_smooth Man page
missing_wells Man page
num_to_well Man page
pc_grid Man page
pchit_grid Man page
pchit_map Man page
pc_map Man page
plate_effect Man page
plate_map Man page
plate_map_grid Man page
plate_map_grid_scale Man page
plate_map_multiple Man page
plate_map_scale Man page
plate_matrix Man page
plt1536 Man page
plt384 Man page
plt96 Man page
raw_grid Man page
raw_map Man page
read_map Man page
readmap_data Man page
rotate_plate Man page
well_to_num Man page
z_grid Man page
z_map Man page

Files

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

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.