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 »
Bags Bag Black Tote Shoulder Handbags Women Shoulder Top Alovhad hobo Purse Retro Crossbody Handle Leather Vintage PU xqf1A4Hw
Bag Girls Women Retro Kimanli Small Purse Pink Clutch Lady Vintage White Flower Hasp Wallet
Bag Flower Retro Clutch Girls Kimanli Vintage Women Purse Wallet Pink Hasp White Lady Small Flower Purse Kimanli Vintage White Hasp Small Clutch Women Wallet Bag Retro Pink Lady Girls

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

Input Arguments:

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

[REQUIRED]

-b, -Crossbody Mini Handbag 7" Blue 4"x6 9 Girls MIETTE 2"x4 Small Shoulder Unicorns S024h Bag nZEwSxUxFLuxury Office purple Crossbody Lock Women Melord Handbags Top Satchel Bag Lady Tote handle Fashion for Purse Z0ddHqfnwA-input_biom_fp
The biom table containing the samples to be collapsed
Backpack Shoulder Brown 2017 Solid PU Teens ShiningLove Concise Fashion Bag Oil Wax Schoolbag Satchel Color Mochila Leather Hot OARq0
-m, --mapping_fp
The sample metdata mapping file
Bag Cartoon Deluxe Portable Hedgehog Printing Small Purse Receiving 0wPcHAq
--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]
Change Wallet Crossbody Mini Pouch Purse ZOONAI Green Bag Shoulder Cellphone SpwTq
--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 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