df2yaml

The goal of df2yaml is to simplify the process of converting dataframe to YAML. The dataframe with multiple key columns and one value column (this column can also contain key-value pair(s)) will be converted to multi-level hierarchy.

Installation

df2yaml is an R package distributed as part of the CRAN. To install the package, start R and enter:

# install via CRAN
install.package("df2yaml")
# install via Github
# install.package("remotes")   #In case you have not installed it.
remotes::install_github("showteeth/df2yaml")

In general, it is recommended to install from Github repository (update more timely).

Usage

# library
library(df2yaml)
#> Warning: replacing previous import 'lifecycle::last_warnings' by
#> 'rlang::last_warnings' when loading 'tibble'
#> Warning: replacing previous import 'lifecycle::last_warnings' by
#> 'rlang::last_warnings' when loading 'pillar'
# load test file
test_file <- system.file("extdata", "df2yaml_l3.txt", package = "df2yaml")
test_data = read.table(file = test_file, header = T, sep = "\t")
head(test_data)
#>      paras      subcmd                                            values
#> 1   picard insert_size                                  MINIMUM_PCT: 0.5
#> 2   picard     markdup CREATE_INDEX: true; VALIDATION_STRINGENCY: SILENT
#> 3   preseq                                     -r 100 -seg_len 100000000
#> 4 qualimap                           --java-mem-size=20G -outformat HTML
#> 5    rseqc             mapq: 30; percentile-floor: 5; percentile-step: 5
# output yaml string
yaml_res = df2yaml(df = test_data, key_col = c("paras", "subcmd"), val_col = "values")
cat(yaml_res)
#> preseq: -r 100 -seg_len 100000000
#> qualimap: --java-mem-size=20G -outformat HTML
#> rseqc:
#>   mapq: 30
#>   percentile-floor: 5
#>   percentile-step: 5
#> picard:
#>   insert_size:
#>     MINIMUM_PCT: 0.5
#>   markdup:
#>     CREATE_INDEX: true
#>     VALIDATION_STRINGENCY: SILENT

Code of Conduct

Please note that the df2yaml project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.