toxbootWriteMongo: Write bootstrap results to mongoDB

In ericwatt/toxboot: Bootstrap Methods for 'ToxCast' High Throughput Screening Data

Description

toxbootWriteMongo writes results to a mongo database

Usage

toxbootWriteMongo(dat, this_m4id, boot_method, replicates, logc_vect,
  starttime, concvals, datchemresult, datsample)

Arguments

dat	A data.table. Required columns are: logc: numeric, contains concentrations resp: numeric, normalized response values paired with concentrations m3id: numeric, value unique to each row corresponding to an individual concentration and response m4id: numeric, value unique to an aeid/spid pair. Multiple m3ids per m4id aeid: numeric, assay id spid: character, sample ID bmad: numeric, baseline mad. Unique to an aeid.
this_m4id	numeric length 1, m4id to bootstrap. Choice of m4id will determine which rows are selected, and therefore the values of logc, resp, m3id, aeid, spid, and bmad.
boot_method	parameter passed to toxbootReplicates to determine sampling method
replicates	number of bootstrap samples. Default 100
logc_vect	vect
starttime	time
concvals	logical, default is FALSE. If TRUE, dose response samples written to the database as well.
datchemresult	data.table
datsample	data.table used if concval = T

Details

The fitted results are assembled into a json object using jsonlite and written to the mongoDB.

See Also

toxboot

ericwatt/toxboot documentation built on May 16, 2019, 8:41 a.m.