Package: platetools 0.1.6

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.

Authors:Scott Warchal [aut, cre]

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platetools.pdf |platetools.html✨
platetools/json (API)

# Install 'platetools' in R:
install.packages('platetools', repos = c('https://swarchal.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/swarchal/platetools/issues

Datasets:

On CRAN:

biologyggplot2lab

6.16 score 54 stars 135 scripts 317 downloads 37 exports 28 dependencies

Last updated 9 months agofrom:60229560ea. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 02 2024
R-4.5-winOKNov 02 2024
R-4.5-linuxOKNov 02 2024
R-4.4-winOKNov 02 2024
R-4.4-macOKNov 02 2024
R-4.3-winOKNov 02 2024
R-4.3-macOKNov 02 2024

Exports:b_gridb_mapb_scorebhit_mapdist_mapfill_platehit_gridhit_maplegend_titlemed_smoothmissing_wellsnum_to_wellpc_gridpc_mappchit_gridpchit_mapplate_effectplate_mapplate_map_gridplate_map_grid_scaleplate_map_scaleplate_matrixplt12plt1536plt24plt384plt48plt6plt96raw_gridraw_mapread_maprotate_plateset_blockwell_to_numz_gridz_map

Dependencies:clicolorspacefansifarverggplot2gluegtableisobandlabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepillarpkgconfigR6RColorBrewerrlangscalestibbleutf8vctrsviridisLitewithr

Readme and manuals

Help Manual

Help pageTopics
Plots multiple b-scored normalised platemapsb_grid
Plots a heatmap of b-score normalised values in a plate layoutb_map
2 way median polishb_score
Platemap to identify 'hits' following a B-score normalisationbhit_map
checks plate input for dodgy well plate combinationscheck_plate_input
Plots distributions per well in a plate layoutdist_map
Fill in missing wellsfill_plate
Plots multiple platemaps with and identifies hitshit_grid
Platemap to identify 'hits' in a screenhit_map
internal 1536 plate function for plate_mapis_1536
check ggplot2 versionis_old_ggplot
change legend titlelegend_title
Converts list to a dataframe in a sensible waylist_to_dataframe
2-way median smoothmed_smooth
Returns wells that are missing from a complete platemissing_wells
Converts numbers to well labelsnum_to_well
Plots multiple platemaps as a heatmap of the first principal component.pc_grid
Principal component heatmap in a plate layoutpc_map
Plots multiple heatmaps identifying hits from the first principal componentpchit_grid
Plots a heatmap identifying hits from the first principal componentpchit_map
Two way-median smooth on a plate mapplate_effect
creates dataframe of row,column,data from wellID and dataplate_map
creates dataframe of row, column, plate_id from data regarding wellIDsplate_map_grid
creates dataframe of row, column, plate_id from data regarding wellIDsplate_map_grid_scale
row, column for multiple featuresplate_map_multiple
creates dataframe of row, column, and scaled data from well IDsplate_map_scale
plate layout matrix from well IDsplate_matrix
ggplot plate objectplt12
ggplot plate objectplt1536
ggplot plate objectplt24
ggplot plate objectplt384
ggplot plate objectplt48
ggplot plate objectplt6
ggplot plate objectplt96
Plots multiple platemaps with heatmap of raw valuesraw_grid
Plots a platemap with heatmap of raw valuesraw_map
Annotates dataframe with metadata in a platemap matrixread_map
example data in a plate map formreadmap_data
rotates matrix by 180 degreesrotate_plate
Set values in rectangular areas of a plateset_block
Converts well labels to numberswell_to_num
Plots multiple platemaps with heatmap of scaled valuesz_grid
Plots a platemap with heatmap of scaled valuesz_map