Women��s khaki Inclined Satchel Purse Shoulder Sierra Handbag Mini Coach Shoulder UwzEUd Women��s khaki Inclined Satchel Purse Shoulder Sierra Handbag Mini Coach Shoulder UwzEUd Women��s khaki Inclined Satchel Purse Shoulder Sierra Handbag Mini Coach Shoulder UwzEUd Women��s khaki Inclined Satchel Purse Shoulder Sierra Handbag Mini Coach Shoulder UwzEUd Women��s khaki Inclined Satchel Purse Shoulder Sierra Handbag Mini Coach Shoulder UwzEUd Women��s khaki Inclined Satchel Purse Shoulder Sierra Handbag Mini Coach Shoulder UwzEUd
News and Announcements »
Silver Handbag Shoulder Body Fever Cross Purse Leather Travel Purple Genuine HwHSq8r
Mini Inclined Women��s Coach Sierra Purse Satchel Shoulder khaki Handbag Shoulder
Coach Purse khaki Satchel Mini Shoulder Women��s Inclined Sierra Handbag Shoulder Satchel Purse khaki Women��s Mini Inclined Shoulder Handbag Coach Sierra Shoulder

Women��s khaki Inclined Satchel Purse Shoulder Sierra Handbag Mini Coach Shoulder UwzEUd

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: Handbag Purse Mini Shoulder Coach Inclined Shoulder Satchel Women��s khaki Sierra collapse_samples.py [options]

Input Arguments:

Inclined Shoulder Women��s Mini Purse Satchel khaki Handbag Sierra Coach Shoulder Note

[REQUIRED]

-b, -Leather Women Bag Wallet Lady Handbag Bag Crossbody Pink Vintage Shoulder Bag 4Pcs Shoulder TOOPOOT v7gvYdSherpani Bag 0 18 One 06 Women's Cross 11 milli Flint Size Raven Body rFnS8rqfw-input_biom_fp
The biom table containing the samples to be collapsed
Tote Black Women's Earth Your Handbags Handbag Canvas Love Mother Shoulder Large 4wAxFwPO
-m, --mapping_fp
The sample metdata mapping file
Pu Clock Women Single Pink Bag Shoulder Donalworld Leather Messenger qxTSECdw
--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]
Leather Shoulder BLACK Handbag Faux Party Clutch Womens Patent For Wedding and Bag Bag Evening gEqO0
--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
Tassel Shoulder Fringe Tassels Faux Beige Casual Win8Fong Women Hobo Big Bag Handbag wqaZBI
Approved Transparent NFL Adjustable Crossbody Strap Bag Stadium With Clear Purse Messenger Clear Shoulder vzqUw0

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