print_metadata_stats.py – Count the number of samples associated to a category value

Description:

Sum up the number of samples with each category value and print this information.

Usage: print_metadata_stats.py [options]

Input Arguments:

Note

[REQUIRED]

-m, --mapping_file

The input metadata file

-c, --category

The category to examine

[OPTIONAL]

-o, --output_fp

Path where output will be written [default: print to screen]

Output:

Two columns, the first being the category value and the second being the count. Output is to standard out. If there are unspecified values, the output category is identified as *UNSPECIFIED*

Example:

Count the number of samples associated with Treatment

print_metadata_stats.py -m $PWD/mapping.txt -c Treatment

Example writting the output to a file:

Count the number of samples associated with Treatment and save them to a file called stats.txt

print_metadata_stats.py -m mapping.txt -c Treatment -o stats.txt