Package: swfscDAS 0.6.3

Sam Woodman

swfscDAS: Processing DAS Data Files

Process and summarize DAS data files. These files are typically, but do not have to be DAS <https://swfsc-publications.fisheries.noaa.gov/publications/TM/SWFSC/NOAA-TM-NMFS-SWFSC-305.PDF> data produced by the Southwest Fisheries Science Center (SWFSC) program 'WinCruz'. This package standardizes and streamlines basic DAS data processing, and includes a PDF with the DAS data format requirements expected by the package.

Authors:Sam Woodman [aut, cre]

swfscDAS_0.6.3.tar.gz
swfscDAS_0.6.3.zip(r-4.5)swfscDAS_0.6.3.zip(r-4.4)swfscDAS_0.6.3.zip(r-4.3)
swfscDAS_0.6.3.tgz(r-4.4-any)swfscDAS_0.6.3.tgz(r-4.3-any)
swfscDAS_0.6.3.tar.gz(r-4.5-noble)swfscDAS_0.6.3.tar.gz(r-4.4-noble)
swfscDAS_0.6.3.tgz(r-4.4-emscripten)swfscDAS_0.6.3.tgz(r-4.3-emscripten)
swfscDAS.pdf |swfscDAS.html✨
swfscDAS/json (API)
NEWS

# Install 'swfscDAS' in R:

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

Bug tracker:https://github.com/swfsc/swfscdas/issues

Uses libs:

jags– Just Another Gibbs Sampler for Bayesian MCMC
c++– GNU Standard C++ Library v3

On CRAN:

24 exports 3 stars 1.82 score 86 dependencies 3 dependents 24 scripts 350 downloads

Last updated 2 months agofrom:30fbaf24ea. Checks:OK: 7. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Sep 15 2024
R-4.5-win	OK	Sep 15 2024
R-4.5-linux	OK	Sep 15 2024
R-4.4-win	OK	Sep 15 2024
R-4.4-mac	OK	Sep 15 2024
R-4.3-win	OK	Sep 15 2024
R-4.3-mac	OK	Sep 15 2024

Exports:.chop_condition_eff .chop_equallength_eff .dist_from_prev .process_chr .process_num .segdata_aggr .segdata_proc as_das_df as_das_dfr das_check das_chop_condition das_chop_equallength das_chop_section das_comments das_effort das_effort_sight das_format_pdf das_intersects_strata das_process das_read das_segdata das_sight distance_greatcircle randpicks_convert

Dependencies:abind bit bit64 class classInt cli clipr clue cluster coda colorspace cpp11 crayon DBI deldir dplyr e1071 fansi farver fBasics generics ggplot2 ggrepel glue gss gtable HDInterval hms igraph isoband KernSmooth kknn labeling lattice lifecycle lubridate magrittr MASS Matrix mgcv modeest munsell nlme pillar pkgconfig polyclip prettyunits progress proxy purrr R6 RColorBrewer Rcpp readr rlang rmutil rpart runjags s2 scales sf spatial spatstat.data spatstat.geom spatstat.univar spatstat.utils stable stabledist statip stringi stringr swfscMisc tibble tidyr tidyselect timechange timeDate timeSeries tzdb units utf8 vctrs viridisLite vroom withr wk

Joining DAS outputs with external data

Rendered fromDAS_data_join.Rmdusingknitr::rmarkdownon Sep 15 2024.

Last update: 2020-06-29
Started: 2020-06-13

Introduction to swfscDAS

Rendered fromswfscDAS.Rmdusingknitr::rmarkdownon Sep 15 2024.

Last update: 2024-07-02
Started: 2020-05-20

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Southwest Fisheries Science Center DAS	swfscDAS-package swfscDAS
Coerce object to a das_df object	as_das_df as_das_df.das_df as_das_df.data.frame
Coerce object to a das_dfr object	as_das_dfr as_das_dfr.das_dfr as_das_dfr.data.frame
Check DAS file	das_check
Chop DAS data - condition	das_chop_condition das_chop_condition.das_df das_chop_condition.data.frame
Chop DAS data - equal length	das_chop_equallength das_chop_equallength.das_df das_chop_equallength.data.frame
Chop DAS data - section	das_chop_section das_chop_section.das_df das_chop_section.data.frame
Extract comments from DAS data	das_comments das_comments.das_df das_comments.das_dfr das_comments.data.frame
'das_df' class	das_df das_df-class
'das_dfr' class	das_dfr das_dfr-class
Summarize DAS effort	das_effort das_effort.das_df das_effort.data.frame
Summarize DAS sightings by effort segment	das_effort_sight
Split effort by strata	das_effort_strata das_effort_strata.das_df das_effort_strata.data.frame
DAS format requirements	das_format_pdf
DAS strata - points	das_intersects_strata das_intersects_strata.data.frame das_intersects_strata.list
Process DAS data	das_process das_process.character das_process.das_dfr das_process.data.frame
Read DAS file(s)	das_read
Summarize DAS data for a continuous effort section	das_segdata das_segdata.das_df das_segdata.data.frame
DAS sightings	das_sight das_sight.das_df das_sight.data.frame
Calculate great-circle distance	distance_greatcircle
Convert randpicks file	randpicks_convert
Subsetting objects created using swfscDAS	$<-.das_df $<-.das_dfr subsetting [.das_df [.das_dfr [<-.das_df [<-.das_dfr [[<-.das_df [[<-.das_dfr
Internal functions for swfscAirDAS	.chop_condition_eff .chop_equallength_eff .dist_from_prev .process_chr .process_num .segdata_aggr .segdata_proc swfscAirDAS-internals