merge_replica module¶

merge_replica.merge_replica(inpath, meta_table, outpath)[source]¶

Function to merge replica with same BioSample = Case_ID and condition

Param: inpath: path to TPM/featureCounts merged table
Param: meta_table: metadata table, dataFrame
Param: outpath: path where to store merged_file, csv
Returns: merged_replica_file.csv

merge_replica.read_metadata(meta)[source]¶

Function to read metadata table and connect case_id to file_id Format: FileID, CaseID, Sample_Type, Project

Param: meta: inpath to metadata table
Returns: metadata: as dataFrame
Returns: dictionary: mapping case_id to sample_ids