From b53ca24f26c759a8ecf5e00f791a4134dd1a926c Mon Sep 17 00:00:00 2001
From: Johannes Ranke <jranke@uni-bremen.de>
Date: Tue, 1 Nov 2022 17:26:05 +0100
Subject: Add read_spreadsheet

---
 man/read_spreadsheet.Rd | 55 +++++++++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 55 insertions(+)
 create mode 100644 man/read_spreadsheet.Rd

(limited to 'man')

diff --git a/man/read_spreadsheet.Rd b/man/read_spreadsheet.Rd
new file mode 100644
index 00000000..147d09bf
--- /dev/null
+++ b/man/read_spreadsheet.Rd
@@ -0,0 +1,55 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/read_spreadsheet.R
+\name{read_spreadsheet}
+\alias{read_spreadsheet}
+\title{Read datasets and relevant meta information from a spreadsheet file}
+\usage{
+read_spreadsheet(
+  path,
+  valid_datasets = "all",
+  parent_only = TRUE,
+  normalize = TRUE
+)
+}
+\arguments{
+\item{path}{Absolute or relative path to the spreadsheet file}
+
+\item{valid_datasets}{Optional numeric index of the valid datasets, default is
+to use all datasets}
+
+\item{parent_only}{Should only the parent data be used?}
+
+\item{normalize}{Should the time scale be normalized using temperature
+and moisture normalisation factors in the sheet 'Datasets'?}
+}
+\description{
+This function imports one dataset from each sheet of a spreadsheet file.
+These sheets are selected based on the contents of a sheet 'Datasets', with
+a column called 'Dataset Number', containing numbers identifying the dataset
+sheets to be read in. In the second column there must be a grouping
+variable, which will often be named 'Soil'. Optionally, time normalization
+factors can be given in columns named 'Temperature' and 'Moisture'.
+}
+\details{
+There must be a sheet 'Compounds', with columns 'Name' and 'Acronym'.
+The first row read after the header read in from this sheet is assumed
+to contain name and acronym of the parent compound.
+
+The dataset sheets should be named using the dataset numbers read in from
+the 'Datasets' sheet, i.e. '1', '2', ... . In each dataset sheet, name
+of the observed variable (e.g. the acronym of the parent compound or
+one of its transformation products) should be in the first column,
+the time values should be in the second colum, and the observed value
+in the third column.
+
+In case relevant covariate data are available, they should be given
+in a sheet 'Covariates', containing one line for each value of the grouping
+variable specified in 'Datasets'. These values should be in the first
+column and the column must have the same name as the second column in
+'Datasets'. Covariates will be read in from columns four and higher.
+Their names should preferably not contain special characters like spaces,
+so they can be easily used for specifying covariate models.
+
+An similar data structure is defined as the R6 class \link{mkindsg}, but
+is probably more complicated to use.
+}
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