import_new_data: Import new data into DoOR

In ropensci/DoOR.functions: Integrating Heterogeneous Odorant Response Data into a Common Response Model: A DoOR to the Complete Olfactome

Import new data into DoOR

Description

Import or update new data and update door_global_normalization_weights, door_response_range, odor, ORs and receptor data frames.

Usage

import_new_data(file.name,
  dataFormat = door_default_values("door_data_format"),
  odor_data = door_default_values("odor"),
  weightGlobNorm = door_default_values("door_global_normalization_weights"),
  responseRange = door_default_values("door_response_range"),
  receptors = door_default_values("ORs"),
  ident = door_default_values("ident"), round = 3)

Arguments

file.name	character string, the name of given file that contains response values of one or more odorant receptors, either a .csv or .txt file.
dataFormat	data frame, a data frame does not contain any response value but odorant information.
odor_data	data frame, contains the odorant information.
weightGlobNorm	data matrix, indicates whether given receptor has been measured by given study.
responseRange	data frame, contains the information about response range of each study and how many odors have been measured in each study.
receptors	data frame, contains the receptor and OSN names and their expression.
ident	the identifier used for matching, usually the InChIKey is used.
round	the number of digits the imported values are rounded to.

Details

import_new_data is used to import new data into database. If the data contains a new receptor or ORN, then build a new data frame for this receptor or ORN. If the data contains a receptor that is already present in database, then merge the imported data into old data frame. The information (e.g. response range, how many receptors and odors were measured from given study) will be integrated into data door_response_range, odor, ORs and door_global_normalization_weights. If an existing study is imported, remove_study will be run first in order to perform an update.

Author(s)

Shouwen Ma <[e-mail]>

Daniel Münch <[e-mail]>

Examples

## Not run: 
import new data named "odorantResponses_Orx.txt" into database and update the
support data.
library(DoOR.data)
import_new_data(file.name = "odorantResponses_Orx.csv")

## End(Not run)

ropensci/DoOR.functions documentation built on Feb. 22, 2024, 9:44 a.m.