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Added conf_level argument to ds - issue 215 #216

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Added conf_level argument to ds - issue 215 #216

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2 changes: 1 addition & 1 deletion DESCRIPTION
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Expand Up @@ -16,7 +16,7 @@ Description: A simple way of fitting detection functions to distance sampling
Horvitz-Thompson-like estimator) if survey area information is provided. See
Miller et al. (2019) <doi:10.18637/jss.v089.i01> for more information on
methods and <https://distancesampling.org/resources/vignettes.html> for example analyses.
Version: 2.0.1
Version: 2.0.1.9000
URL: https://github.com/DistanceDevelopment/Distance/
BugReports: https://github.com/DistanceDevelopment/Distance/issues
Language: en-GB
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4 changes: 4 additions & 0 deletions NEWS.md
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@@ -1,3 +1,7 @@
# Distance 2.0.2

* Added argument conf_level to ds so users can specify level of confidence in computing confidence intervals (Issue #215)

# Distance 2.0.1

* Fixes issue with print dht2 when multipliers are a data.frame (Issue #179)
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8 changes: 7 additions & 1 deletion R/ds.R
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Expand Up @@ -130,6 +130,7 @@
#' @param winebin If you are trying to use our MCDS.exe optimizer on a
#' non-windows system then you may need to specify the winebin. Please
#' see [`mcds_dot_exe`][mrds::mcds_dot_exe] for more details.
#' @param conf_level level of confidence used in computations of confidence interval width: default 0.95, must be between 0 and 1
#' @param dht.group deprecated, see same argument with underscore, above.
#' @param region.table deprecated, see same argument with underscore, above.
#' @param sample.table deprecated, see same argument with underscore, above.
Expand Down Expand Up @@ -340,6 +341,7 @@ ds <- function(data, truncation=ifelse(is.null(data$distend),
initial_values=NULL, max_adjustments=5, er_method=2, dht_se=TRUE,
optimizer = "both",
winebin = NULL,
conf_level = 0.95,
# deprecated below here:
dht.group,
region.table,
Expand Down Expand Up @@ -531,6 +533,9 @@ ds <- function(data, truncation=ifelse(is.null(data$distend),
stop("Cannot supply initial values when using AIC term selection")
}

# check conf_level
if(!((conf_level >= 0) | (conf_level <= 1))) stop("Option conf_level is not in the range 0-1")

### Actually fit some models here

# construct the meta data object...
Expand Down Expand Up @@ -731,7 +736,8 @@ ds <- function(data, truncation=ifelse(is.null(data$distend),
dht_options <- list(group = dht_group,
ervar = er_var,
varflag = er_method,
convert.units = convert_units)
convert.units = convert_units,
ci.width = conf_level)

# if no obs_table
if(is.null(obs_table)){
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