babies

Longitudinal Stool Samples from Infants (n = 2,684)

datasets

A toolkit for working with Biological Observation Matrix ('BIOM') files.
Read/write all 'BIOM' formats. Compute rarefaction, alpha diversity, and
beta diversity (including 'UniFrac'). Summarize counts by taxonomic level.
Subset based on metadata. Generate visualizations and statistical analyses.
CPU intensive operations are coded in C for speed.

Daniel P. Smith

rbiom

Read/Write, Analyze, and Visualize 'BIOM' Data

Alkek Center for Metagenomics and Microbiome Research 

babies function

An rbiom object with 2,684 samples.
Includes metadata and taxonomy.<dl>
<dt>Subject ID - </dt>
<dd>ID1, ID2, ..., ID12</dd><dt>Sex - </dt>
<dd>Male or Female</dd><dt>Age (days) - </dt>
<dd>1 - 266</dd><dt>Child's diet - </dt>
<dd>"Breast milk", "Breast milk and formula", or "Formula"</dd><dt>Sample collection - </dt>
<dd>"Frozen upon collection" or "Stored in alcohol"</dd><dt>Antibiotic exposure - </dt>
<dd>Yes or No</dd><dt>Antifungal exposure - </dt>
<dd>Yes or No</dd><dt>Delivery mode - </dt>
<dd>Cesarean or Vaginal</dd><dt>Solid food introduced (Age) - </dt>
<dd>116 - 247</dd>
</dl>

Format

Longitudinal Stool Samples from Infants (n = 2,684) — babies

An rbiom object with 2,684 samples.
Includes metadata and taxonomy.<dl>
<dt>Subject ID - </dt>
<dd>ID1, ID2, ..., ID12</dd>

<dt>Sex - </dt>
<dd>Male or Female</dd>

<dt>Age (days) - </dt>
<dd>1 - 266</dd>

<dt>Child's diet - </dt>
<dd>"Breast milk", "Breast milk and formula", or "Formula"</dd>

<dt>Sample collection - </dt>
<dd>"Frozen upon collection" or "Stored in alcohol"</dd>

<dt>Antibiotic exposure - </dt>
<dd>Yes or No</dd>

<dt>Antifungal exposure - </dt>
<dd>Yes or No</dd>

<dt>Delivery mode - </dt>
<dd>Cesarean or Vaginal</dd>

<dt>Solid food introduced (Age) - </dt>
<dd>116 - 247</dd>


</dl>

babies: Longitudinal Stool Samples from Infants (n = 2,684)

Description

Usage

Arguments

Format