Combine samples — combine_samples • scrnaseq.cellcomm

hard-combine results per sample.

Usage

combine_samples(
  input_dir,
  metadata,
  patient_var,
  condition_var = "Condition_dummy",
  sample_var = "Sample",
  output_dir = "."
)

input_dir: directory with files ending in '__interactions_mvoted.rds', '__signif_interactions.rds' and '*__interactions_agg_rank.rds',
metadata: path to file with corresponding metadata (RDS)
patient_var: patient variable name in metadata
condition_var: condition variable name in metadata (default = "Condition_dummy")
sample_var: sample variable name in metadata (default = "Sample")
output_dir: output directory for saving output (default = '.')