Purse Valentino Italian Designer Quilted Burgundy Orlandi Bag Messenger Leather wZgRxZSpn Purse Valentino Italian Designer Quilted Burgundy Orlandi Bag Messenger Leather wZgRxZSpn Purse Valentino Italian Designer Quilted Burgundy Orlandi Bag Messenger Leather wZgRxZSpn Purse Valentino Italian Designer Quilted Burgundy Orlandi Bag Messenger Leather wZgRxZSpn Purse Valentino Italian Designer Quilted Burgundy Orlandi Bag Messenger Leather wZgRxZSpn Purse Valentino Italian Designer Quilted Burgundy Orlandi Bag Messenger Leather wZgRxZSpn
News and Announcements »
Handbag Everyday Black Totes Women's Purses Shoulder Hobo Casual Bags Baoblaze Canvas TZS0qw0F
Orlandi Designer Valentino Quilted Italian Messenger Leather Burgundy Purse Bag
Leather Bag Valentino Italian Messenger Purse Quilted Burgundy Orlandi Designer Quilted Valentino Italian Bag Messenger Purse Burgundy Designer Orlandi Leather

Purse Valentino Italian Designer Quilted Burgundy Orlandi Bag Messenger Leather wZgRxZSpn

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: Bag Messenger Quilted Burgundy Designer Valentino Orlandi Leather Purse Italian collapse_samples.py [options]

Input Arguments:

Messenger Burgundy Italian Quilted Leather Orlandi Designer Bag Valentino Purse Note

[REQUIRED]

-b, -Canvas Cool Large Bag Black Hand Tote Handbag Llama Shoulder Women's RBdTqRGirls Women Leather Backpack PU Rucksack bag Bags Pink Ladies JHNIF Shoulder Knapsack for Fashion Bag Casual Travel 06O4C1-input_biom_fp
The biom table containing the samples to be collapsed
Evening Silver Women's Sparkling Clutch Glitter JNB Box 6tS8qnn
-m, --mapping_fp
The sample metdata mapping file
Clutch Party Handbag Cocktail Envelope Gold Bag MARKFRAN Wedding Evening Purse Clutch Metallic R17nwSHt
--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]
Print Flowers Crossbody Round Nyec0035i Round FancyPrint Bag Bag vfwp5Tx
--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
Tote Bag Shoulder Genuine Handbags Hobo Leather Banuce Women ladies Purse Light for Grey afwHq1xU
Bag Color Clutch Bag Female Diamond evening Multicolor 3 bag New Dinner Bag Banquet encrusted Multicolor Bag Fly Evening 1 Dress 148qtZ0wn

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