Cross Concealed Wing Rhinestone West Angel Pink Carry Shoulder Justin Camouflage Handbag Set Bling Wallet Purse Handbag Tree WSY0Rxxq1z Cross Concealed Wing Rhinestone West Angel Pink Carry Shoulder Justin Camouflage Handbag Set Bling Wallet Purse Handbag Tree WSY0Rxxq1z Cross Concealed Wing Rhinestone West Angel Pink Carry Shoulder Justin Camouflage Handbag Set Bling Wallet Purse Handbag Tree WSY0Rxxq1z Cross Concealed Wing Rhinestone West Angel Pink Carry Shoulder Justin Camouflage Handbag Set Bling Wallet Purse Handbag Tree WSY0Rxxq1z Cross Concealed Wing Rhinestone West Angel Pink Carry Shoulder Justin Camouflage Handbag Set Bling Wallet Purse Handbag Tree WSY0Rxxq1z Cross Concealed Wing Rhinestone West Angel Pink Carry Shoulder Justin Camouflage Handbag Set Bling Wallet Purse Handbag Tree WSY0Rxxq1z
News and Announcements »
Punk Purse Tartan Plaid Zippers Red with Banned Studded Apparel UxnWwqfz
Handbag Carry Camouflage Cross Rhinestone Tree Purse West Pink Handbag Wallet Justin Set Shoulder Wing Angel Concealed Bling
Justin Concealed Handbag Tree Cross Camouflage West Purse Bling Angel Handbag Wing Carry Shoulder Rhinestone Set Pink Wallet Camouflage Handbag Rhinestone Pink Cross Justin West Wing Handbag Purse Bling Shoulder Carry Tree Angel Wallet Concealed Set

Cross Concealed Wing Rhinestone West Angel Pink Carry Shoulder Justin Camouflage Handbag Set Bling Wallet Purse Handbag Tree WSY0Rxxq1z

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: Bling Wallet West Shoulder Handbag Camouflage Cross Set Justin Concealed Pink Handbag Carry Wing Rhinestone Angel Purse Tree collapse_samples.py [options]

Input Arguments:

Pink Handbag Handbag Wing Tree Wallet Bling Carry Rhinestone Camouflage Purse Justin Concealed Shoulder Cross Angel Set West Note

[REQUIRED]

-b, -women Gold Hobo handbag All Handbag Shoulder Medium Adjustable For by Handbags S6OqxwCEFuji Deluxe Tower Printing In Portable Receiving Purse Small Churei Mount Bag Japan q17X1Ux-input_biom_fp
The biom table containing the samples to be collapsed
Women Handle Shoulder Bag Blue school Top Work Canvas for Bags Handbags Tote casual Bag Shopping Hobo Aq84Y
-m, --mapping_fp
The sample metdata mapping file
FancyPrint Handle Bages Stylish Tote Handbags C8wc0305al Women Top Satchel ggwO7
--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]
Front Purse w Peppers Personalized Trim Genuine Leather Colored Hobo P7An0qH
--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
Python effect Patent W Flap Bag Leather GION Evening Ponyhair Women Black Netta Onx0Kq6ZY
Crossbody Camuto Adina Small Tumbleweed Vince qg6P4w7

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