Read contrast results from standardized file format

Reads contrasts.tsv and metadata.yaml from the specified directory. Applies ground truth annotation (species and TP columns) based on the ground_truth specification in metadata.yaml.

read_contrast_results(path)

Arguments

path

directory containing contrasts.tsv and metadata.yaml

Value

list with elements:

data

data.frame with contrast results including species and TP columns

metadata

list parsed from metadata.yaml

See also

Other benchmarking: Benchmark, benchmark_from_file(), collect_benchmark_results(), ionstar_bench_preprocess(), make_benchmark(), ms_bench_add_scores(), ms_bench_ap(), ms_bench_auc(), plot_benchmark_comparison(), read_benchmark_results(), write_benchmark_results(), write_contrast_results()

Examples

if (FALSE) { # \dontrun{
res <- read_contrast_results("/tmp/ionstar_lm")
head(res$data)
res$metadata$method
} # }