Predict full TFBS for all expressed TFs
Usage
module1_predict_full_tfbs(
module1_inputs,
prediction_footprints,
out_dir = "predict_tf_binding_sites",
r_cutoff = 0.3,
p_cutoff = NULL,
fdr_cutoff = NULL,
min_non_na = 3L,
cores = NULL,
write_outputs = TRUE,
output_format = c("csv", "parquet", "auto"),
return_prediction_stats = NULL,
verbose = TRUE
)Arguments
- module1_inputs
Output from module1_prepare_tfbs_inputs.
- prediction_footprints
Footprint table from module1_filter_canonical_bound_tfbs.
- out_dir
Output directory.
- r_cutoff
Minimum positive best correlation.
- p_cutoff
Optional best-method p-value cutoff.
- fdr_cutoff
Optional best-method FDR cutoff.
- min_non_na
Minimum finite condition pairs required.
- cores
Number of worker cores; NULL uses all available cores.
- write_outputs
Write predicted TFBS outputs.
- output_format
One of csv, parquet, or auto.
- return_prediction_stats
Return full prediction statistics in memory.
- verbose
Emit concise progress messages.