Brings SingleCellExperiment to the Tidyverse


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Documentation for package ‘tidySingleCellExperiment’ version 1.14.0

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add_count Count the observations in each group
add_count.SingleCellExperiment Count the observations in each group
aggregate_cells Aggregate cells
aggregate_cells-method Aggregate cells
arrange Order rows using column values
arrange.SingleCellExperiment Order rows using column values
as_tibble Coerce lists, matrices, and more to data frames
as_tibble.SingleCellExperiment Coerce lists, matrices, and more to data frames
bind_cols Efficiently bind multiple data frames by row and column
bind_cols.SingleCellExperiment Efficiently bind multiple data frames by row and column
bind_rows Efficiently bind multiple data frames by row and column
bind_rows.SingleCellExperiment Efficiently bind multiple data frames by row and column
cell_type_df Cell types of 80 PBMC single cells
count Count the observations in each group
count.SingleCellExperiment Count the observations in each group
distinct Keep distinct/unique rows
distinct.SingleCellExperiment Keep distinct/unique rows
extract Extract a character column into multiple columns using regular expression groups
extract.SingleCellExperiment Extract a character column into multiple columns using regular expression groups
filter Keep rows that match a condition
filter.SingleCellExperiment Keep rows that match a condition
formatting Printing tibbles
full_join Mutating joins
full_join.SingleCellExperiment Mutating joins
ggplot Create a new 'ggplot' from a 'tidySingleCellExperiment'
ggplot.SingleCellExperiment Create a new 'ggplot' from a 'tidySingleCellExperiment'
glimpse Get a glimpse of your data
glimpse.tidySingleCellExperiment Get a glimpse of your data
group_by Group by one or more variables
group_by.SingleCellExperiment Group by one or more variables
group_split Split data frame by groups
group_split.SingleCellExperiment Split data frame by groups
inner_join Mutating joins
inner_join.SingleCellExperiment Mutating joins
join_features join_features
join_features-method join_features
join_transcripts (DEPRECATED) Extract and join information for transcripts.
left_join Mutating joins
left_join.SingleCellExperiment Mutating joins
mutate Create, modify, and delete columns
mutate.SingleCellExperiment Create, modify, and delete columns
nest Nest rows into a list-column of data frames
nest.SingleCellExperiment Nest rows into a list-column of data frames
pbmc_small pbmc_small
pbmc_small_nested_interactions Intercellular ligand-receptor interactions for 38 ligands from a single cell RNA-seq cluster.
pivot_longer Pivot data from wide to long
pivot_longer.SingleCellExperiment Pivot data from wide to long
plot_ly Initiate a plotly visualization
plot_ly.SingleCellExperiment Initiate a plotly visualization
print Printing tibbles
print.SingleCellExperiment Printing tibbles
pull Extract a single column
pull.SingleCellExperiment Extract a single column
rename Rename columns
rename.SingleCellExperiment Rename columns
return_arguments_of returns variables from an expression
right_join Mutating joins
right_join.SingleCellExperiment Mutating joins
rowwise Group input by rows
rowwise.SingleCellExperiment Group input by rows
sample_frac Sample n rows from a table
sample_frac.SingleCellExperiment Sample n rows from a table
sample_n Sample n rows from a table
sample_n.SingleCellExperiment Sample n rows from a table
select Keep or drop columns using their names and types
select.SingleCellExperiment Keep or drop columns using their names and types
separate Separate a character column into multiple columns with a regular expression or numeric locations
separate.SingleCellExperiment Separate a character column into multiple columns with a regular expression or numeric locations
slice Subset rows using their positions
slice.SingleCellExperiment Subset rows using their positions
slice_head Subset rows using their positions
slice_head.SingleCellExperiment Subset rows using their positions
slice_max Subset rows using their positions
slice_max.SingleCellExperiment Subset rows using their positions
slice_min Subset rows using their positions
slice_min.SingleCellExperiment Subset rows using their positions
slice_sample Subset rows using their positions
slice_sample.SingleCellExperiment Subset rows using their positions
slice_tail Subset rows using their positions
slice_tail.SingleCellExperiment Subset rows using their positions
summarise Summarise each group down to one row
summarise.SingleCellExperiment Summarise each group down to one row
summarize Summarise each group down to one row
summarize.SingleCellExperiment Summarise each group down to one row
tbl_format_header Format the header of a tibble
tbl_format_header.tidySingleCellExperiment Format the header of a tibble
tidy tidy for 'SingleCellExperiment'
tidy.SingleCellExperiment tidy for 'SingleCellExperiment'
unite Unite multiple columns into one by pasting strings together
unite.SingleCellExperiment Unite multiple columns into one by pasting strings together
unnest Unnest a list-column of data frames into rows and columns
unnest.tidySingleCellExperiment_nested Unnest a list-column of data frames into rows and columns
unnest_single_cell_experiment Unnest a list-column of data frames into rows and columns