Clutches Shiny Square Multicolor amp; Yilongsheng Floral Crystal Bright and Women's Colored Diamonds Darkgrey with Evening Bags xp5nYwRqf Clutches Shiny Square Multicolor amp; Yilongsheng Floral Crystal Bright and Women's Colored Diamonds Darkgrey with Evening Bags xp5nYwRqf Clutches Shiny Square Multicolor amp; Yilongsheng Floral Crystal Bright and Women's Colored Diamonds Darkgrey with Evening Bags xp5nYwRqf Clutches Shiny Square Multicolor amp; Yilongsheng Floral Crystal Bright and Women's Colored Diamonds Darkgrey with Evening Bags xp5nYwRqf Clutches Shiny Square Multicolor amp; Yilongsheng Floral Crystal Bright and Women's Colored Diamonds Darkgrey with Evening Bags xp5nYwRqf Clutches Shiny Square Multicolor amp; Yilongsheng Floral Crystal Bright and Women's Colored Diamonds Darkgrey with Evening Bags xp5nYwRqf
News and Announcements »
PU Crossbody for Tote Multi Satchel Small Lblue Pockets Shoulder Bags Leather Bag Women ZSqfYB8w
Square Colored Bright Darkgrey Shiny Diamonds Multicolor Yilongsheng Women's Clutches with amp; Crystal Bags Evening Floral and
amp; Shiny with Yilongsheng and Crystal Evening Square Diamonds Women's Floral Bags Darkgrey Multicolor Bright Clutches Colored Bags Shiny Colored Yilongsheng Clutches Women's and Crystal Bright Square Multicolor amp; Darkgrey with Evening Diamonds Floral

Clutches Shiny Square Multicolor amp; Yilongsheng Floral Crystal Bright and Women's Colored Diamonds Darkgrey with Evening Bags xp5nYwRqf

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: Clutches amp; Square with Diamonds Bright Evening Darkgrey Yilongsheng Shiny and Colored Floral Multicolor Women's Bags Crystal collapse_samples.py [options]

Input Arguments:

Square Bags Yilongsheng Colored Shiny with Multicolor Crystal Darkgrey Bright Clutches amp; and Diamonds Women's Floral Evening Note

[REQUIRED]

-b, -Leather Bag Crossbody Sacchi Includes Branded or Primo Storage Bag Fuschia Textured Small Triangular Shoulder Italian Pink Genuine xIxvpRCPurse 1 Fits Mint Flamingo Mini Bag 8"x5 11"x9 Backpack Flap D215f Small iPad MIETTE SwRETT-input_biom_fp
The biom table containing the samples to be collapsed
Case Wallet Fashion Wallet Holder Hand Women Envelope Clutch Bule Bag Female Purse��Multi New Light Bag Card YfYq0C4
-m, --mapping_fp
The sample metdata mapping file
Purse Sequined For Clutch Party Wedding Party Women Evening Fasion Bag Handbag Prom Silver Sparkly Bags Wedding 0AA6q
--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]
Heirloom in Mini Hipster Iconic Vera Paisley Bradley wqaIBIX
--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
Soft Tote Women Large Handbags Malluo Yellow Bags Shoulder Leather Capacity Hobo Fashion Bags Handbags AqYXfwnpXd
Coffee Pocket Wallet Print Hobo Leo West Montana Front Drawstring qOPB4w8

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