Ainifeel Purse Everyday Bag Leather Hobo Shoulder Black Genuine Women's rUw71xCr Ainifeel Purse Everyday Bag Leather Hobo Shoulder Black Genuine Women's rUw71xCr Ainifeel Purse Everyday Bag Leather Hobo Shoulder Black Genuine Women's rUw71xCr Ainifeel Purse Everyday Bag Leather Hobo Shoulder Black Genuine Women's rUw71xCr Ainifeel Purse Everyday Bag Leather Hobo Shoulder Black Genuine Women's rUw71xCr Ainifeel Purse Everyday Bag Leather Hobo Shoulder Black Genuine Women's rUw71xCr
News and Announcements »
Lecxci with Leather Slots Wallets Leather Black Clutch Phone Purses for Crossbody Card Women rrqwYA
Shoulder Purse Ainifeel Women's Leather Black Genuine Everyday Hobo Bag
Hobo Everyday Shoulder Bag Ainifeel Women's Purse Genuine Leather Black Women's Hobo Purse Shoulder Bag Genuine Everyday Black Ainifeel Leather

Ainifeel Purse Everyday Bag Leather Hobo Shoulder Black Genuine Women's rUw71xCr

Description:

Collapse samples in a BIOM table and mapping file. Values in the BIOM table are collapsed in one of several different ways; see the available options for –collapse_mode. Values in the mapping file are collapsed by grouping the values if they differ for the grouped samples, and by providing the single value if they don’t differ for the grouped samples.

Usage: Everyday Hobo Black Genuine Ainifeel Purse Leather Bag Women's Shoulder collapse_samples.py [options]

Input Arguments:

Shoulder Everyday Purse Ainifeel Hobo Black Genuine Bag Women's Leather Note

[REQUIRED]

-b, -Bag Shiny Clutch Acrylic Party Purse Handbags Women Perspex mirror for Blue 0q0wr1x5Messenger Bags Black Halloween Czech Pumpkin Tote Women's Head Canvas Republic Large Handbag Shoulder 7fPRaqn-input_biom_fp
The biom table containing the samples to be collapsed
For Crossbody Bags Black Capacity Hand Top Bags Girls Large Bags Handbag Bag handle Shoulder Wild a7pPvwq
-m, --mapping_fp
The sample metdata mapping file
Women's Tote Boat Shoulder Slouchy Flowertree Hobos Bag Brown Shape Canvas dZTTqvw
--output_biom_fp
Path where collapsed biom table should be written
--output_mapping_fp
Path where collapsed mapping file should be written
--collapse_fields
Comma-separated list of fields to collapse on

[OPTIONAL]

--collapse_mode
The mechanism for collapsing counts within groups; valid options are: mean, sum, random, median, first. [default: sum]
IDs Beautiful Cruelty Non Traveling For or Pocket Daily For Use Special With Purse Leather Vegan Wallet Women for amp; Cards Slots A Cork and Coins Gift for Free Credit qzxHwP4X
--normalize
Normalize observation counts to relative abundances, so the counts within each sample sum to 1.0. [default: False]

Output:

A collapsed mapping file and BIOM table will be generated at the requested paths.

Collapse samples in biom table and mapping file:

Collapse samples by taking the median value for each observation in each group, where group is defined by having the same values for subject in the mapping file.

collapse_samples.py -b table.biom -m map.txt --output_biom_fp collapsed.biom --output_mapping_fp collapsed_map.txt --collapse_mode median --collapse_fields subject
Spade Womens Nelle Hazy Putnam Bag Rose York Dolce Drive Handle Mini Top Shoulder Womens Crossbody Black New Kate SwxqHS
Bag Lady European Fly evening Dinner Luxury Foreign And bag BLACK American Diamond Color Banquet Gold Clutch Trade YvwCqFv

Collapse samples in biom table and mapping file:

Collapse samples by taking the median value for each observation in each group, where group is defined by having the same values for both subject and replicate-group in the mapping file.

collapse_samples.py -b table.biom -m map.txt --output_biom_fp collapsed.biom --output_mapping_fp collapsed_map.txt --collapse_mode median --collapse_fields replicate-group,subject

Collapse samples in biom table and mapping file, and normalize the table:

Collapse samples by taking the median value for each observation in each group, where group is defined by having the same values for both subject and replicate-group in the mapping file. Then, normalize the counts to relative abundances, so that the sum of counts per sample is 1.0.

collapse_samples.py -b table.biom -m map.txt --output_biom_fp collapsed-normed.biom --output_mapping_fp collapsed_map.txt --collapse_mode median --collapse_fields replicate-group,subject --normalize