unravel.allen_institute.mapmysections.csv_concat_with_source module#

Use mms_concat_with_source or mms_c from UNRAVEL to concatenate multiple CSV files, include a ‘source_file’ column, and sort rows by that column.

Prereqs:

mms_soma_ratio or mms_seg_summary
Aggregate their outputs
For mms_seg_summary, use agg to aggregate results across samples and cd to the target directory.

Note

This command loads all matching CSV files.
It adds a ‘source_file’ column (file stem).
It handles empty files by filling rows with 0s for all expected columns.
It sorts all rows by ‘source_file’.

Usage:#

csv_concat_with_source [-i ‘<asterisk>.csv’] [-o output.csv] [-v]

unravel.allen_institute.mapmysections.csv_concat_with_source.parse_args()[source]#

unravel.allen_institute.mapmysections.csv_concat_with_source.main()[source]#