Package: ArgosQC 0.9-16

ArgosQC: Quality Control Process for the Integrated Marine Observing System's Argos Location Data

An automated Argos location quality control process for Argos location data from satellite tags. Functions automatically download and collate data from one of several potential remote source: a user-supplied URL, a user-supplied Google Drive link, a user-supplied Dropbox link, the SMRU server, or the Wildlife Computers Portal API. The package matches deployment data with user-supplied deployment metadata; projects location data from lon,lat to a user-supplied projection or a default projection; fits user-specified SSM's in 2 passes to estimate most plausible locations; collates results by species & deployment program; generates diagnostic plots & maps; appends predicted locations at tag-measured event times to the tag manufacturer activity files such as CTD profiles, dive records, haulout records, and the Argos and (when present) GPS location files; saves activity files as .csv in one of several possible schema (IMOS ATF, ATN, User-defined); pushes QC'd files to a user-specified server or saves to a local archive (zipfile).

Authors:Ian Jonsen [aut, cre, cph]

ArgosQC_0.9-16.tar.gz
ArgosQC_0.9-16.zip(r-4.7)ArgosQC_0.9-16.zip(r-4.6)ArgosQC_0.9-16.zip(r-4.5)
ArgosQC_0.9-16.tgz(r-4.6-any)ArgosQC_0.9-16.tgz(r-4.5-any)
ArgosQC_0.9-16.tar.gz(r-4.7-any)ArgosQC_0.9-16.tar.gz(r-4.6-any)
ArgosQC_0.9-16.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
ArgosQC/json (API)

# Install 'ArgosQC' in R:

install.packages('ArgosQC', repos = c('https://ianjonsen.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/ianjonsen/argosqc/issues

Pkgdown/docs site:https://ianjonsen.github.io

On CRAN:

4.93 score 1 stars 4 scripts 20 exports 157 dependencies

Last updated from:6eebe98d3a. Checks:7 ERROR, 2 OK. Indexed: yes.

Target	Result	Time
linux-devel-x86_64	ERROR	473
source / vignettes	OK	389
linux-release-x86_64	ERROR	415
macos-release-arm64	ERROR	255
macos-oldrel-arm64	ERROR	233
windows-devel	ERROR	380
windows-release	ERROR	361
windows-oldrel	ERROR	372
wasm-release	OK	175

Exports:diagnostics download_data get_metadata map_QC multi_filter pull_local_data redo_multi_filter smru_append_ssm smru_clean_diag smru_prep_loc smru_pull_tables smru_qc smru_truncate_ssm smru_write_csv ssm_mark_gaps wc_append_ssm wc_prep_loc wc_pull_data wc_qc wc_write_csv

Dependencies:abind aniMotum askpass assertthat base64enc bit bit64 boot brio bslib cachem callr CircStats class classInt cli clipr codetools cpp11 crayon credentials crsmeta curl DBI deldir desc diffobj digest dplyr e1071 evaluate farver fastmap fontawesome fs furrr future generics geodist geographiclib gert ggplot2 gitcreds globals glue gmm goftest gridExtra gtable highr hms htmltools httr httr2 ini isoband jquerylib jsonlite kableExtra KernSmooth knitr labeling lattice lifecycle listenv lubridate magrittr MASS Matrix memoise mime mvtnorm nlme openssl parallelly patchwork pillar pkgbuild pkgconfig pkgload polyclip praise prettyunits processx progress PROJ proj4 proxy ps purrr R6 rappdirs raster RColorBrewer Rcpp RcppEigen readr reproj rlang rmarkdown rnaturalearth rnaturalearthdata rprojroot rstudioapi rvest s2 S7 sandwich sass scales selectr sf snakecase sp spatstat.data spatstat.explore spatstat.geom spatstat.random spatstat.sparse spatstat.univar spatstat.utils stringi stringr svglite sys systemfonts tensor terra testthat textshaping tibble tidyr tidyselect timechange tinytex TMB tmvtnorm traipse trip tzdb units usethis utf8 vctrs viridis viridisLite vroom waldo whisker withr wk xfun XML xml2 yaml zip zoo

SMRU_workflow

SMRU SRDL tag QC workflow | Output .CSV files | Metadata .CSV file | SSMOutputs .CSV file

Rendered fromSMRU_workflow.Rmdusingknitr::rmarkdown

Last update: 2026-02-18
Started: 2025-11-10

WC_config_file

Wildlife Computers QC config file structure | Additional details on config parameters

Rendered fromWC_config_file.Rmdusingknitr::rmarkdown

Last update: 2025-11-18
Started: 2025-11-17

WC_workflow

Wildlife Computers (WC) tag QC workflow | Output .CSV files | Metadata .CSV file | ssmoutputs .CSV file

Rendered fromWC_workflow.Rmdusingknitr::rmarkdown

Last update: 2025-11-17
Started: 2025-11-10

SMRU_config_file

SMRU QC config file structure | Additional details on config parameters

Rendered fromSMRU_config_file.Rmdusingknitr::rmarkdown

Last update: 2025-11-17
Started: 2025-11-17

Overview

Background | Workflows

Rendered fromoverview.Rmdusingknitr::rmarkdown

Last update: 2025-11-10
Started: 2025-06-13

Help page	Topics
run QC diagnostics for WC or SMRU tag workflows	diagnostics
Download SMRU or Wildlife Computers tag data from their servers	download_data
download deployment metadata	get_metadata
map_QC	map_QC
multi-filter	multi_filter
Pull tables from local tag datafiles	pull_local_data
redo failed multi-filter cases	redo_multi_filter
append SMRU tables with SSM-estimated locations	smru_append_ssm
clean diag files	smru_clean_diag
clean, truncate & convert diag files to sf-tibbles	smru_prep_loc
Pull tables from SMRU .mdb files	smru_pull_tables
SMRU SRDL QC workflow	smru_qc
right-truncate all SSM-appended SMRU tables using CTD end date for given individuals	smru_truncate_ssm
reconfigure annotated SMRU tables, test for expected data schema for AODN	smru_write_csv
Identify SSM predicted & rerouted (if present) location estimates in data gaps	ssm_mark_gaps
append WC tag datafiles with SSM-estimated locations	wc_append_ssm
clean, truncate & convert WC Locations files to sf-tibbles	wc_prep_loc
Pull data from Wildlife Computers tag data files	wc_pull_data
WC tag QC workflow	wc_qc
write annotated WC tag datafiles & annotated metadata	wc_write_csv

Package: ArgosQC 0.9-16

ArgosQC: Quality Control Process for the Integrated Marine Observing System's Argos Location Data

Citation

Development and contributors

Readme and manuals

Help Manual

Usage by other packages (reverse dependencies)