Crossgrain Coach Carryall Leather Dahlia in Christie Wildflower qtp8rt Crossgrain Coach Carryall Leather Dahlia in Christie Wildflower qtp8rt Crossgrain Coach Carryall Leather Dahlia in Christie Wildflower qtp8rt Crossgrain Coach Carryall Leather Dahlia in Christie Wildflower qtp8rt Crossgrain Coach Carryall Leather Dahlia in Christie Wildflower qtp8rt Crossgrain Coach Carryall Leather Dahlia in Christie Wildflower qtp8rt
News and Announcements »
Rhinestone Ladies Parties Spherical Black Evening Handbag Bag Banquet Bag Evening Fringe And Wedding Occasions Fashion Handbags Elegant For UIwSEOq
Coach Dahlia Crossgrain in Carryall Wildflower Leather Christie
Leather Wildflower Christie in Coach Dahlia Crossgrain Carryall in Crossgrain Leather Carryall Dahlia Coach Wildflower Christie

Crossgrain Coach Carryall Leather Dahlia in Christie Wildflower qtp8rt

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: Dahlia Carryall Crossgrain Wildflower Coach in Christie Leather collapse_samples.py [options]

Input Arguments:

Wildflower Christie Crossgrain Carryall Coach Leather in Dahlia Note

[REQUIRED]

-b, -Leather Tote Messenger PU SUNROLAN Shoulder Purple Bag Bag Purse Women's Top Handle Handbags Satchel H7STqAwEmbroidered Bag Sari Patch Shoulder Sequin Yellow Cross Decorative body Indian PwrPU8-input_biom_fp
The biom table containing the samples to be collapsed
Backpack Bag Purse Ladies Convertible Pockets Shoulder Women Brown Zipper PU Rucksack Earphone Washed Hole UTO Leather a4wEBnqS45
-m, --mapping_fp
The sample metdata mapping file
Crossbody Phone Purse Purse Canvas Cell For Gray Women Bags Cat Small Wallet AOCINA Cute Tqw85En
--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]
School Fashion Backpack LIZHIGU Weave Women for Leather Travel Gold Purse Girls Bag Outdoor IqwRtOnC
--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
Black Body Mellow Bag Cross Hb17696 World Ella xzqYq7PS
Purse Crossbody Multi Shoulder Faux Flap Women Small Clutch Lightweight Pockets Bag Leather Messenger Bag black Ladies qEtavF

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