tidyFlowCore: Bringing flowCore to the tidyverse

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Documentation for package ‘tidyFlowCore’ version 1.0.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

arrange.flowFrame	Order rows using column values
arrange.flowSet	Order rows using column values
as_flowFrame	Coerce an object into a 'flowFrame'
as_flowFrame.tof_tbl	Coerce an object into a 'flowFrame'
as_flowSet	Coerce an object into a 'flowSet'
as_flowSet.tof_tbl	Coerce an object into a 'flowSet'
as_tof_tbl	Coerce flowFrames or flowSets into tibbles.
as_tof_tbl.flowSet	Convert an object into a tibble-flowCore abstraction (a 'tof_tbl')
count.flowFrame	Count the observations in each group.
count.flowSet	Count the observations in each group.
filter.flowFrame	Keep rows that match a condition.
filter.flowSet	Keep rows that match a condition.
ggplot.flowFrame	Create a new ggplot.
ggplot.flowSet	Create a new ggplot.
group_by.flowFrame	Group a flowFrame into a flowSet using one or more variables.
make_flowcore_annotated_data_frame	Make the AnnotatedDataFrame needed for the flowFrame class
metal_masterlist	A character vector of CyTOF metal name patterns supported by tidyFlowCore
mutate.flowFrame	Create, modify, and delete columns.
mutate.flowSet	Create, modify, and delete columns.
nest.flowFrame	Nest a 'flowFrame' into a 'flowSet'
new_tof_tibble	Constructor for a tof_tibble.
pull.flowFrame	Extract a single column.
pull.flowSet	Extract a single column.
rename.flowFrame	Rename columns in a 'flowFrame'
rename.flowSet	Rename columns in a 'flowSet'
rename_with.flowFrame	Rename columns in a 'flowFrame'
rename_with.flowSet	Rename columns in a 'flowSet'
select.flowFrame	Keep or drop columns using their names and types.
select.flowSet	Keep or drop columns using their names and types.
simulate_cytometry_data	Simulate Cytometry Data for FlowSet and FlowFrame Analysis
slice.flowFrame	Subset rows using their positions
slice.flowSet	Subset rows using their positions
slice_head.flowFrame	Subset rows at the head of a data structure.
slice_head.flowSet	Subset rows at the head of a data structure.
slice_max.flowFrame	Subset rows of a data structure in order.
slice_max.flowSet	Subset rows of a data structure in order.
slice_min.flowFrame	Subset rows of a data structure in order.
slice_min.flowSet	Subset rows of a data structure in order.
slice_sample.flowFrame	Subset rows randomly
slice_sample.flowSet	Subset rows randomly
slice_tail.flowFrame	Subset rows at the tail of a data structure.
slice_tail.flowSet	Subset rows at the tail of a data structure.
summarise.flowFrame	Summarize a flowFrame.
summarise.flowSet	Summarize a flowSet.
summarize.flowFrame	Summarize a flowFrame.
summarize.flowSet	Summarize a flowSet.
tof_find_panel_info	Use tidyFlowCore's opinionated heuristic for extracting a high-dimensional cytometry panel's channel-antigen pairs from a flowFrame (read from a .fcs file.)
tof_get_panel	Get panel information from a tof_tibble
tof_set_panel	Set panel information from a tof_tbl
transmute.flowFrame	Create, modify, and delete columns.
transmute.flowSet	Create, modify, and delete columns.
ungroup.flowSet	Ungroup a flowSet
unnest.flowSet	Unnest a 'flowSet' into a single 'flowFrame'