Brings SummarizedExperiment to the Tidyverse


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Documentation for package ‘tidySummarizedExperiment’ version 1.18.0

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as_tibble Coerce lists, matrices, and more to data frames
as_tibble.SummarizedExperiment Coerce lists, matrices, and more to data frames
bind_cols Efficiently bind multiple data frames by row and column
bind_cols.RangedSummarizedExperiment Efficiently bind multiple data frames by row and column
bind_cols.SummarizedExperiment Efficiently bind multiple data frames by row and column
bind_rows Efficiently bind multiple data frames by row and column
bind_rows.SummarizedExperiment Efficiently bind multiple data frames by row and column
count Count the observations in each group
count.SummarizedExperiment Count the observations in each group
distinct Keep distinct/unique rows
distinct.SummarizedExperiment Keep distinct/unique rows
extract Extract a character column into multiple columns using regular expression groups
extract.SummarizedExperiment Extract a character column into multiple columns using regular expression groups
filter Keep rows that match a condition
filter.SummarizedExperiment Keep rows that match a condition
formatting Printing tibbles
full_join Mutating joins
full_join.SummarizedExperiment Mutating joins
ggplot Create a new 'ggplot' from a 'tidyseurat'
ggplot.SummarizedExperiment Create a new 'ggplot' from a 'tidyseurat'
group_by Group by one or more variables
group_by.SummarizedExperiment Group by one or more variables
group_split Split data frame by groups
group_split.SummarizedExperiment Split data frame by groups
inner_join Mutating joins
inner_join.SummarizedExperiment Mutating joins
left_join Mutating joins
left_join.SummarizedExperiment Mutating joins
mutate Create, modify, and delete columns
mutate.SummarizedExperiment Create, modify, and delete columns
mutate_features Mutate features
mutate_samples Mutate samples
nest Nest rows into a list-column of data frames
nest.SummarizedExperiment Nest rows into a list-column of data frames
pasilla Read counts of RNA-seq samples of Pasilla knock-down by Brooks et al.
pivot_longer Pivot data from wide to long
pivot_longer.SummarizedExperiment Pivot data from wide to long
pivot_wider Pivot data from long to wide
pivot_wider.SummarizedExperiment Pivot data from long to wide
plot_ly Initiate a plotly visualization
plot_ly.SummarizedExperiment Initiate a plotly visualization
plot_ly.tbl_df Initiate a plotly visualization
print Printing tibbles
print.SummarizedExperiment Printing tibbles
pull Extract a single column
pull.SummarizedExperiment Extract a single column
rename Rename columns
rename.SummarizedExperiment Rename columns
right_join Mutating joins
right_join.SummarizedExperiment Mutating joins
rowwise Group input by rows
rowwise.SummarizedExperiment Group input by rows
sample_frac Sample n rows from a table
sample_frac.SummarizedExperiment Sample n rows from a table
sample_n Sample n rows from a table
sample_n.SummarizedExperiment Sample n rows from a table
se Read counts of RNA-seq samples derived from Pasilla knock-down by Brooks et al.
select Keep or drop columns using their names and types
select.SummarizedExperiment 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.SummarizedExperiment Separate a character column into multiple columns with a regular expression or numeric locations
slice Subset rows using their positions
slice.SummarizedExperiment Subset rows using their positions
slice_head Subset rows using their positions
slice_max Subset rows using their positions
slice_min Subset rows using their positions
slice_sample Subset rows using their positions
slice_tail Subset rows using their positions
summarise Summarise each group down to one row
summarise.SummarizedExperiment Summarise each group down to one row
summarize Summarise each group down to one row
summarize.SummarizedExperiment Summarise each group down to one row
tbl_format_header Format the header of a tibble
tbl_format_header.tidySummarizedExperiment Format the header of a tibble
tidy tidy for 'Seurat'
tidy.RangedSummarizedExperiment tidy for 'Seurat'
tidy.SummarizedExperiment tidy for 'Seurat'
unite Unite multiple columns into one by pasting strings together
unite.SummarizedExperiment Unite multiple columns into one by pasting strings together
unnest Unnest a list-column of data frames into rows and columns
unnest.tidySummarizedExperiment_nested Unnest a list-column of data frames into rows and columns
unnest_summarized_experiment Unnest a list-column of data frames into rows and columns