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Filter Samples Based on Case Control Criteria

filter_case_control.Rd

This function filters the samples in the provided data frame based on case control criteria. It excludes individuals without a matched caseset and those matched casesets with more than two individuals. It also provides information on excluded samples.

Usage

filter_case_control(df, df_meta_samples, col_case_control, col_samples)

Arguments

df

A data frame containing feature data where rows represent samples and columns represent features.

df_meta_samples

A data frame containing sample metadata with at least the column specified by col_case_control.

col_case_control

A string specifying the column name in df_meta_samples that indicates case control groups.

col_samples

A string specifying the column name in df_meta_samples to use for sample filtering (e.g., ID column).

Value

A list containing:

  • filtered_df: The filtered feature data frame.

  • filtered_samples: The filtered sample data frame.

  • excluded_ids: A vector of IDs of excluded samples.