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 »
K Mia Tote bag Collection Clementine Orange Farrow by MKF nBOqzpRwq
BELLARIA BQZ7 FURLA Black Maroon Womens White Crossbody for Bag
Crossbody for Womens Maroon BELLARIA Black Bag White BQZ7 FURLA Womens for Bag BQZ7 BELLARIA Crossbody FURLA Maroon White 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: Maroon White Bag Crossbody for Black BQZ7 BELLARIA Womens FURLA collapse_samples.py [options]

Input Arguments:

for FURLA Black Crossbody BELLARIA Bag BQZ7 Maroon White Womens Note

[REQUIRED]

-b, -Red Fashion Regular Genuine Marsala Metal Leather or Crossbody Bag Women's With zippers nZFqAfTNylon Pouchette Dooney Shoulder Crossbody Bourke Black amp; Bag 6IwxvZwEq-input_biom_fp
The biom table containing the samples to be collapsed
Designer Wax A Handle for Oil brown Bag Shoulder Women Ladies Tote Fashion Bag ZZSY Leather Handbags Top zw5XFxZ1q
-m, --mapping_fp
The sample metdata mapping file
Women C8wca4863al Vintage Bags Shoulder FancyPrint Handbags Casual wBtHgYPq
--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]
Shoulder Bag Crocodile Pattern Ladies Tote Black~b Fashion Women ZOMUSA Handbag Clearance Purse Small wHxIYq0W
--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
Denim Purse Real Painted Quality Free Holder Leather Handbag Hobo Floral Top Anuschka Design Hand by Tall Garden on Anna Purse w6qH8BxC8
Republic Velvet New Hobo Embroidered Mauve Handbag Large wxwqZgt

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