Description Usage Details Value Available Methods Note See Also

`sc1_mthds`

returns a list of functions to be used during level 1
single-concentration processing.

1 |

The functions contained in the list returned by `sc1_mthds`

return
a list of expressions to be executed in the `sc2`

(not exported)
function environment. The functions are described here for reference
purposes, The `sc1_mthds`

function is not exported, nor is it
intended for use.

All available methods are described in the Available Methods section, listed by the function/method name.

A list functions

The methods are broken into three types, based on what fields they define. Different methods are used to define "bval" (the baseline value), "pval" (the positive control value), and "resp" (the final response value).

Although it does not say so specifically in each description, all methods are applied by acid.

More information about the level 3 single-concentration processing is available in the package vignette, "Pipeline_Overview."

- bval.apid.nwlls.med
Calculate bval as the median of rval for wells with wllt equal to "n," by apid.

- bval.apid.twlls.med
Calculate bval as the median of rval for wells with wllt equal to "t," by apid.

- bval.apid.tn.med
Calculate bval as the median of rval for wells with wllt equal to "t" or "n," by apid.

- pval.apid.pwlls.med
Calculate pval as the median of rval for wells with wllt equal to "p," by apid.

- pval.apid.mwlls.med
Calculate pval as the median of rval for wells with wllt equal to "m," by apid.

- pval.apid.medpcbyconc.max
First calculate the median of rval for wells with wllt equal to "p" or "c," by wllt, conc, and apid. Then calculate pval as the maximum of the calculated medians, by apid.

- pval.apid.medpcbyconc.min
First calculate the median of rval for wells with wllt equal to "p" or "c," by wllt, conc, and apid. Then calculate pval as the minimum of the calculated medians, by apid.

- pval.apid.medncbyconc.min
First calculate the median of rval for wells with wllt equal to "m" or "o," by wllt, conc, and apid. Then calculate pval as the minimum of the calculated medians, by apid.

- pval.zero
Define pval as 0.

- resp.pc
Calculate resp as

*(rval - bval)/(pval - bval)*100*.- resp.fc
Calculate resp as

*rval/bval*.- resp.logfc
Calculate resp as

*rval - bval*.- resp.log2
Take the logarithm of resp with base 2.

- resp.multneg1
Multiply resp by -1.

- none
Do no normalization; make resp equal to rval.

This function is not exported and is not intended to be used by the user.

`sc1`

, `Method functions`

to query what
methods get applied to each acid

USEPA/CompTox-ToxCast-tcpl documentation built on May 5, 2019, 4:48 p.m.

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