Package: ArgosQC 0.10-2

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_0.10-2.tar.gz
ArgosQC_0.10-2.zip(r-4.7-any)ArgosQC_0.10-2.zip(r-4.6-any)ArgosQC_0.10-2.zip(r-4.5-any)
ArgosQC_0.10-2.tgz(r-4.6-any)ArgosQC_0.10-2.tgz(r-4.5-any)
ArgosQC_0.10-2.tar.gz(r-4.7-any)ArgosQC_0.10-2.tar.gz(r-4.6-any)
ArgosQC_0.10-2.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:

Conda:

5.11 score 2 stars 6 scripts 25 exports 158 dependencies

Last updated from:dae9dd3ed5. Checks:7 ERROR, 2 OK. Indexed: yes.
A new build is currently in progress.

TargetResultTimeFilesSyslog
linux-develERROR382
source / vignettesOK388
linux-releaseERROR416
macos-releaseERROR210
macos-oldrelERROR228
windows-develERROR291
windows-releaseERROR312
windows-oldrelERROR255
wasm-releaseOK194

Exports:accept_trim_datesdiagnosticsdownload_dataget_metadataimos_smru_dm_qcmap_QCmulti_filterpull_local_dataredo_multi_filtersmru_append_ssmsmru_clean_diagsmru_prep_locsmru_pull_tablessmru_qcsmru_suggest_trimsmru_truncate_ssmsmru_write_csvssm_mark_gapstrim_locstrim_zoomwc_append_ssmwc_prep_locwc_pull_datawc_qcwc_write_csv

Dependencies:abindaniMotumaskpassassertthatbase64encbitbit64bootbriobslibcachemcallrCircStatsclassclassIntclicliprcodetoolscpp11crayoncredentialscrsmetacurlDBIdeldirdescdiffobjdigestdplyre1071evaluatefarverfastmapfontawesomefsfurrrfuturegenericsgeodistgeographiclibgertggplot2gitcredsglobalsgluegmmgoftestgridExtragtablehighrhmshtmltoolshttrhttr2iniisobandjquerylibjsonlitekableExtraKernSmoothknitrlabelinglatticelifecyclelistenvlubridatemagrittrMASSMatrixmemoisemimemvtnormnlmeopensslotelpakparallellypatchworkpillarpkgbuildpkgconfigpkgloadpolyclippraiseprettyunitsprocessxprogressPROJproxypspurrrR6rappdirsrasterRColorBrewerRcppRcppEigenreadrreprojrlangrmarkdownrnaturalearthrnaturalearthdatarprojrootrstudioapirvests2S7sandwichsassscalesselectrsfsnakecasespspatstat.dataspatstat.explorespatstat.geomspatstat.randomspatstat.sparsespatstat.univarspatstat.utilsstringistringrsvglitesyssystemfontstensorterratestthattextshapingtibbletidyrtidyselecttimechangetinytexTMBtmvtnormtraipsetriptzdbunitsusethisutf8vctrsviridisviridisLitevroomwaldowhiskerwithrwkxfunXMLxml2yamlzipzoo

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

Readme and manuals

Help Manual

Help pageTopics
Accept all suggested track end dates for delayed-mode QCaccept_trim_dates
run QC diagnostics for WC or SMRU tag workflowsdiagnostics
Download SMRU or Wildlife Computers tag data from their serversdownload_data
download deployment metadataget_metadata
Delayed-mode QC of one IMOS SMRU tag campaign, from config file to AODN uploadimos_smru_dm_qc
map_QCmap_QC
multi-filtermulti_filter
Pull tables from local tag datafilespull_local_data
redo failed multi-filter casesredo_multi_filter
append SMRU tables with SSM-estimated locationssmru_append_ssm
clean diag filessmru_clean_diag
clean, truncate & convert diag files to sf-tibblessmru_prep_loc
Pull tables from SMRU .mdb filessmru_pull_tables
SMRU SRDL QC workflowsmru_qc
Suggest track end dates for delayed-mode QC of SMRU tag datasmru_suggest_trim
right-truncate all SSM-appended SMRU tables using CTD end date for given individualssmru_truncate_ssm
reconfigure annotated SMRU tables, test for expected data schema for AODNsmru_write_csv
Identify SSM predicted & rerouted (if present) location estimates in data gapsssm_mark_gaps
Truncate the location data of individual deployments (delayed-mode QC only)trim_locs
Zoom in on part of a deployment's time series to choose track start and end datestrim_zoom
append WC tag datafiles with SSM-estimated locationswc_append_ssm
clean, truncate & convert WC Locations files to sf-tibbleswc_prep_loc
Pull data from Wildlife Computers tag data fileswc_pull_data
WC tag QC workflowwc_qc
write annotated WC tag datafiles & annotated metadatawc_write_csv