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9 views

Tidyverse Pres

Uploaded by

drwinkhaing
Copyright
© © All Rights Reserved
We take content rights seriously. If you suspect this is your content, claim it here.
Available Formats
Download as PDF, TXT or read online on Scribd
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Data manipulation with tidyverse

Damien Georges

International Agency for Resarch on Cancer

June 2023 - Tartu


Epidemiological study workflow
Data manipulation tools in R

▶ R core function
▶ tidyverse / dplyr
▶ data.table
▶ ...

=> The best tool is the one you feel the most comfortable with
Tidyverse (from www.tidyverse.org)
R packages for data science
The tidyverse is an opinionated collection of R packages designed
for data science. All packages share an underlying design
philosophy, grammar, and data structures.
pipe functions %>% or |>
chill(fold(add(melt(add(chocolate, butter)),
beat(add(eggs.white, cream))))
pipe functions %>%
chill(fold(add(melt(add(chocolate, butter)),
beat(add(eggs.white, cream))))

chocolate %>%
add(butter) %>%
melt() %>%
add(
eggs.white %>%
add(cream) %>%
beat()
) %>%
fold() %>%
chill()
Non-standard evaluation rules for function calls
▶ used in different R packages
▶ provide flexibility and ease of use
▶ more concise and expressive programming in R

dat <- data.frame(x = 1:10)


## subset supports NSE
subset(dat, x < 5)
## and SE
subset(dat, data$x < 5)
data manipulation with
Code as you speak: Data manipulation with dplyr is done using
a limited number of verbs corresponding to an action to be
applied to a table.
▶ select rows (slice)
data manipulation with
Code as you speak: Data manipulation with dplyr is done using
a limited number of verbs corresponding to an action to be
applied to a table.
▶ select rows (slice)
▶ filter rows (filter)
data manipulation with
Code as you speak: Data manipulation with dplyr is done using
a limited number of verbs corresponding to an action to be
applied to a table.
▶ select rows (slice)
▶ filter rows (filter)
▶ arrange rows (arrange)
data manipulation with
Code as you speak: Data manipulation with dplyr is done using
a limited number of verbs corresponding to an action to be
applied to a table.
▶ select rows (slice)
▶ filter rows (filter)
▶ arrange rows (arrange)
▶ select columns (select)
data manipulation with
Code as you speak: Data manipulation with dplyr is done using
a limited number of verbs corresponding to an action to be
applied to a table.
▶ select rows (slice)
▶ filter rows (filter)
▶ arrange rows (arrange)
▶ select columns (select)
▶ create/modify columns (mutate)
data manipulation with
Code as you speak: Data manipulation with dplyr is done using
a limited number of verbs corresponding to an action to be
applied to a table.
▶ select rows (slice)
▶ filter rows (filter)
▶ arrange rows (arrange)
▶ select columns (select)
▶ create/modify columns (mutate)
▶ group and summarize data (group_by and summarise)
data manipulation with
Code as you speak: Data manipulation with dplyr is done using
a limited number of verbs corresponding to an action to be
applied to a table.
▶ select rows (slice)
▶ filter rows (filter)
▶ arrange rows (arrange)
▶ select columns (select)
▶ create/modify columns (mutate)
▶ group and summarize data (group_by and summarise)
▶ bind different tables (bind_rows, bind_cols)
data manipulation with
Code as you speak: Data manipulation with dplyr is done using
a limited number of verbs corresponding to an action to be
applied to a table.
▶ select rows (slice)
▶ filter rows (filter)
▶ arrange rows (arrange)
▶ select columns (select)
▶ create/modify columns (mutate)
▶ group and summarize data (group_by and summarise)
▶ bind different tables (bind_rows, bind_cols)
▶ merge different tables (left_join, right_join,
inner_join, full_join)
discovering other tidyverse packages features

▶ data visualization with (ggplot, geom_bars, . . . )


discovering other tidyverse packages features

▶ data visualization with (ggplot, geom_bars, . . . )

▶ pivoting data with (pivot_wider, pivo_longer)


discovering other tidyverse packages features

▶ data visualization with (ggplot, geom_bars, . . . )

▶ pivoting data with (pivot_wider, pivo_longer)

▶ reading data with (read_table, read_csv)


discovering other tidyverse packages features

▶ data visualization with (ggplot, geom_bars, . . . )

▶ pivoting data with (pivot_wider, pivo_longer)

▶ reading data with (read_table, read_csv)

▶ manipulating lists with (map, map_chr, reduce, . . . )


discovering other tidyverse packages features

▶ data visualization with (ggplot, geom_bars, . . . )

▶ pivoting data with (pivot_wider, pivo_longer)

▶ reading data with (read_table, read_csv)

▶ manipulating lists with (map, map_chr, reduce, . . . )

▶ manipulating strings with (str_length, str_remove,


...)

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