erl3data

A dataset containing the output from <code><a rd-options="" href="/link/toxbootQueryToxCast?package=toxboot&version=0.2.0" data-mini-rdoc="toxboot::toxbootQueryToxCast">toxbootQueryToxCast</a></code>. A
representative assay from each vendor was chosen to pass to
toxbootQueryToxCast, and a random sampling of 200 m4ids were then selected
from this output.

datasets

Provides methods to use bootstrapping to quantify uncertainty
in fitting 'ToxCast' concentration response data. Data is stored in memory,
written to file, or stored in 'MySQL' or 'MongoDB' databases.

Eric D. Watt

toxboot

Bootstrap Methods for 'ToxCast' High Throughput Screening Data

erl3data function

A data.table with 5580 rows and 16 variables:<ul>
<li>m3id : unique identifier for each concentration response value</li>
<li>spid : sample id</li>
<li>aeid : assay endpoint id</li>
<li>logc : log10 of the uM concentration</li>
<li>resp : response value</li>
<li>m4id : unique identifier for the concentration response curve</li>
<li>bmad : baseline median absolute deviation. A measure of baseline
 noise that is used in the fitting routine by <code><a rd-options="" href="/link/tcplFit?package=toxboot&version=0.2.0" data-mini-rdoc="toxboot::tcplFit">tcplFit</a></code> and
 is used as by <code><a rd-options="" href="/link/toxboot?package=toxboot&version=0.2.0" data-mini-rdoc="toxboot::toxboot">toxboot</a></code> as a measurement of noise when
 <code>boot_method = smooth</code>.</li>
</ul>

Format

A dataset containing the output from <code><a rd-options='' href='toxbootQueryToxCast'>toxbootQueryToxCast</a></code>. A
representative assay from each vendor was chosen to pass to
toxbootQueryToxCast, and a random sampling of 200 m4ids were then selected
from this output.

Concentration response data from 200 ER assay curves — erl3data

A data.table with 5580 rows and 16 variables:<ul>
<li>m3id : unique identifier for each concentration response value</li>
<li>spid : sample id</li>
<li>aeid : assay endpoint id</li>
<li>logc : log10 of the uM concentration</li>
<li>resp : response value</li>
<li>m4id : unique identifier for the concentration response curve</li>
<li>bmad : baseline median absolute deviation. A measure of baseline
 noise that is used in the fitting routine by <code><a rd-options='' href='tcplFit'>tcplFit</a></code> and
 is used as by <code><a rd-options='' href='toxboot'>toxboot</a></code> as a measurement of noise when
 <code>boot_method = smooth</code>.</li>
</ul>

erl3data: Concentration response data from 200 ER assay curves

Description

Usage

Arguments

Format

Details