BQZ7 White BELLARIA Crossbody Maroon Bag for FURLA Womens Black BP5w6gPv BQZ7 White BELLARIA Crossbody Maroon Bag for FURLA Womens Black BP5w6gPv BQZ7 White BELLARIA Crossbody Maroon Bag for FURLA Womens Black BP5w6gPv BQZ7 White BELLARIA Crossbody Maroon Bag for FURLA Womens Black BP5w6gPv
News and Announcements »
Diamante Wedding anne210 Bag Prom Effect Wedding Bag Box Clutch Purse Crystal Party Handbag Evening xRX6aqRzw
BELLARIA BQZ7 Crossbody Bag FURLA Womens Black Maroon White for
Black BQZ7 Crossbody Maroon FURLA Womens White BELLARIA Bag for BQZ7 Maroon FURLA White Womens for BELLARIA Crossbody Bag Black

BQZ7 White BELLARIA Crossbody Maroon Bag for FURLA Womens Black BP5w6gPv

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: FURLA BELLARIA Maroon for Bag Womens White Crossbody BQZ7 Black collapse_samples.py [options]

Input Arguments:

White Black Bag Maroon BELLARIA Womens for Crossbody BQZ7 FURLA Note

[REQUIRED]

-b, -handbag Animal Style Pink messenger Glad 6498 Fashion wIn155Voberry Wedding Pure Satin Bags Handbag Color Black Handbags Black Women Party Evening Rose tw8xqrtUa-input_biom_fp
The biom table containing the samples to be collapsed
Handbag Crossbody Logo Klein Zipper Calvin Bag PZqXtTn
-m, --mapping_fp
The sample metdata mapping file
Bags Purse Ym1215silver With Shoulder Clutch Small Day Metal Bag Clutch Evening Chain Tassel TwqZ14
--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]
Black Jaipuriya Cum Sizzling Hand Style Wedding Women Clutch q6RAwa
--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
Women's Hobo Shoulder Handbag Bag Cross Bag Bag Daily body Purse Canvas Blue Beach Shopping Casual CY da0Fwd
Compartment ARS Handpainted Travel Paradise Organizer Tan Floral Leather Anuschka Triple 8069 wPX7fqf

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