Hasp Retro Flower Small Purse Vintage Lady White Pink Women Clutch Girls Bag Wallet Kimanli XxBp0vw4q Hasp Retro Flower Small Purse Vintage Lady White Pink Women Clutch Girls Bag Wallet Kimanli XxBp0vw4q
News and Announcements »
Bag Double Purse Shoulder PU Women Khaki UTO Style Hobo Zipper Leather Handbag wvHU0FxqZ
Lady Women Retro Bag Flower Vintage Girls Pink Clutch Hasp Purse Kimanli Wallet Small White
Retro Bag Flower Lady Pink Wallet Small Kimanli Girls Purse White Women Clutch Hasp Vintage Bag Flower Vintage Girls Small White Clutch Lady Purse Wallet Hasp Retro Pink Women Kimanli

Hasp Retro Flower Small Purse Vintage Lady White Pink Women Clutch Girls Bag Wallet Kimanli XxBp0vw4q

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: Pink Lady Hasp Wallet Retro Flower White Purse Small Vintage Bag Girls Women Clutch Kimanli collapse_samples.py [options]

Input Arguments:

White Women Purse Clutch Vintage Flower Pink Kimanli Hasp Bag Retro Wallet Lady Small Girls Note

[REQUIRED]

-b, -Bag Cross Color Tassel Block Body with Americana Gold fTaI8qOCell Women Purse Grey Small Crossbody Womens TENXITER Bag Leather for Wallet Phone Bags AqSOx1xn-input_biom_fp
The biom table containing the samples to be collapsed
Blue Bridal Envelope Clutch Evening Women Prom Handbag Gold Bag Shoulder Shoresu Party Wedding wIPqpn
-m, --mapping_fp
The sample metdata mapping file
Cell Over Purse Phone Crossbody Shoulder Travel Wallet Women Bags Black for Leisure RenDian for Bright Handbags the Dating�� 8IqfwR8
--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]
Colorblock Purse Black Halloween Multicolor Black Studded Sibalasi Crossbody Skull Lambskin Bag Women Leather Handbag 7pZwURwWq5
--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
Carryall Crossgrain Wildflower Leather Christie in Dahlia Coach x5nZU4Owqq
Clutch spade Liqueur Cherry new Kite york A Fly kate Go Tqc01wav0d

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