Given a parsed pipeline configuration, construct expected file paths for each sample and result type.
Usage
list_pipeline_files(
config,
types = c("charging", "bcerror", "odds_ratios", "align_stats")
)Arguments
- config
A list returned by
read_pipeline_config().- types
Character vector of result types. Valid values:
"charging","bcerror","odds_ratios","align_stats".
Examples
config <- read_pipeline_config(clover_example("ecoli/config.yaml"))
list_pipeline_files(config, types = c("charging", "bcerror"))
#> # A tibble: 12 × 3
#> sample_id type path
#> <chr> <chr> <chr>
#> 1 wt-15-ctl-01 charging /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 2 wt-15-ctl-02 charging /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 3 wt-15-ctl-03 charging /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 4 wt-15-inf-01 charging /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 5 wt-15-inf-02 charging /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 6 wt-15-inf-03 charging /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 7 wt-15-ctl-01 bcerror /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 8 wt-15-ctl-02 bcerror /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 9 wt-15-ctl-03 bcerror /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 10 wt-15-inf-01 bcerror /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 11 wt-15-inf-02 bcerror /home/runner/work/_temp/Library/clover/extdata/ecoli/s…
#> 12 wt-15-inf-03 bcerror /home/runner/work/_temp/Library/clover/extdata/ecoli/s…