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| {"entries":[],"options":{"chapters":true},"headings":["our-objective","user-resources","background-of-the-gap_products-repo","major-advantages"]} | ||
| {"headings":["our-objective","user-resources","background-of-the-gap_products-repo","major-advantages"],"entries":[],"options":{"chapters":true}} |
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| { | ||
| "hash": "cc747c053120d4d05915002dc8c2bcc2", | ||
| "result": { | ||
| "markdown": "---\ntitle: Access API data using R\n---\n\n\n\n\n\n\nUse the below function to pull AKFIN data through AKFIN's API.\n\n\n\n\n::: {.cell}\n\n```{.r .cell-code}\n# load libraries\nlibrary(dplyr)\nlibrary(magrittr)\nlibrary(httr)\nlibrary(flextable)\n\n# tell R to not use scientific notation\noptions(scipen=999)\n\n# function for pulling data from the api using the httr package\nget_gap_biomass<-function(area_id, species_code) {\n # paste(... collapse=\",\") puts commas between vector elements\n area_id <- paste(area_id, collapse = \",\")\n species_code <- paste(species_code, collapse = \",\")\n # httr code, parameters are after the '?'\n httr::content(\n httr::GET(paste0(\"https://apex.psmfc.org/akfin/data_marts/akmp/gap_biomass?area_id=\",\n area_id,\n \"&species_code=\",\n species_code)),\n type = \"application/json\") %>%\n # convert to data frame\n bind_rows()\n}\n```\n:::\n\n\n\n\n## Ex. 1: Load lingcod data\n\n\n\n\n::: {.cell tbl-cap='Ex. 1: Load lingcod data. '}\n\n```{.r .cell-code}\nlingcod_biomass <- get_gap_biomass(area_id=c(40, 41), species_code=21910)\nflextable::flextable(head(lingcod_biomass)) %>%\n flextable::theme_zebra()\n```\n:::\n", | ||
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| "hash": "cc747c053120d4d05915002dc8c2bcc2", | ||
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| "markdown": "---\ntitle: Access API data using R\n---\n\n\n\n\nUse the below function to pull AKFIN data through AKFIN's API.\n\n\n::: {.cell}\n\n```{.r .cell-code}\n# load libraries\nlibrary(dplyr)\nlibrary(magrittr)\nlibrary(httr)\nlibrary(flextable)\n\n# tell R to not use scientific notation\noptions(scipen=999)\n\n# function for pulling data from the api using the httr package\nget_gap_biomass<-function(area_id, species_code) {\n # paste(... collapse=\",\") puts commas between vector elements\n area_id <- paste(area_id, collapse = \",\")\n species_code <- paste(species_code, collapse = \",\")\n # httr code, parameters are after the '?'\n httr::content(\n httr::GET(paste0(\"https://apex.psmfc.org/akfin/data_marts/akmp/gap_biomass?area_id=\",\n area_id,\n \"&species_code=\",\n species_code)),\n type = \"application/json\") %>%\n # convert to data frame\n bind_rows()\n}\n```\n:::\n\n\n## Ex. 1: Load lingcod data\n\n\n::: {.cell tbl-cap='Ex. 1: Load lingcod data. '}\n\n```{.r .cell-code}\nlingcod_biomass <- get_gap_biomass(area_id=c(40, 41), species_code=21910)\nflextable::flextable(head(lingcod_biomass)) %>%\n flextable::theme_zebra()\n```\n:::\n", | ||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,20 @@ | ||
| { | ||
| "hash": "cc747c053120d4d05915002dc8c2bcc2", | ||
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| "markdown": "---\ntitle: Access API data using R\n---\n\n\n\n\n\nUse the below function to pull AKFIN data through AKFIN's API.\n\n\n\n::: {.cell}\n\n```{.r .cell-code}\n# load libraries\nlibrary(dplyr)\nlibrary(magrittr)\nlibrary(httr)\nlibrary(flextable)\n\n# tell R to not use scientific notation\noptions(scipen=999)\n\n# function for pulling data from the api using the httr package\nget_gap_biomass<-function(area_id, species_code) {\n # paste(... collapse=\",\") puts commas between vector elements\n area_id <- paste(area_id, collapse = \",\")\n species_code <- paste(species_code, collapse = \",\")\n # httr code, parameters are after the '?'\n httr::content(\n httr::GET(paste0(\"https://apex.psmfc.org/akfin/data_marts/akmp/gap_biomass?area_id=\",\n area_id,\n \"&species_code=\",\n species_code)),\n type = \"application/json\") %>%\n # convert to data frame\n bind_rows()\n}\n```\n:::\n\n\n\n## Ex. 1: Load lingcod data\n\n\n\n::: {.cell tbl-cap='Ex. 1: Load lingcod data. '}\n\n```{.r .cell-code}\nlingcod_biomass <- get_gap_biomass(area_id=c(40, 41), species_code=21910)\nflextable::flextable(head(lingcod_biomass)) %>%\n flextable::theme_zebra()\n```\n:::\n", | ||
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| { | ||
| "hash": "e233e051e22afdbc021da71ed102a06e", | ||
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| "markdown": "---\ntitle: AKFIN\n---\n\n\n\n\n\n\nThese data are used directly by stock assessors and are provided to The [Alaska Fisheries Information Network (AKFIN)]. \n\n## The Alaska Fisheries Information Network\n\nThe [Alaska Fisheries Information Network (AKFIN)](https://www.psmfc.org/program/alaska-fisheries-information-network-akfin) is a regional program that consolidates and supports the collection, processing, analysis, and reporting of fisheries statistics for North Pacific and Alaskan fisheries. AKFIN integrates this information into a single data management system using consistent methods and standardized formats. The Network then reports this information on its website, in various publications, and to researchers. The resulting data enables fishery managers, scientists, and associated agencies to supervise fisheries resources more effectively and efficiently. \n\nIf you are an AFSC employee with access to data through our internal database Oracle server, use this [guide](https://afsc-gap-products.github.io/gap_products/content/akfin-oracle-sql-r.html) to access our data. If not, reach out to AKFIN for a user account. \n\n## Cite this data\n\nUse the below [bibtext citations](https://github.com/afsc-gap-products/gap_products/blob/main/code/CITATION_GAPakfin.bib), as cited in our group's [citation repository](https://github.com/afsc-gap-products/citations/blob/main/cite/bibliography.bib) for citing the data created and maintained in this repo [@GAPakfin]. Add \"note = {Accessed: mm/dd/yyyy}\" to append the day this data was accessed. \n\n\n\n\n::: {.cell}\n::: {.cell-output .cell-output-stdout}\n```\n@misc{GAPakfin,\n author = {{Alaska Fisheries Information Network (AKFIN)}}, \n institution = {{NOAA Fisheries Alaska Fisheries Science Center, Goundfish Assessment Program}},\n year = {2023}, \n title = {AFSC Goundfish Assessment Program Design-Based Production Data},\n howpublished = {https://www.psmfc.org/program/alaska-fisheries-information-network-akfin},\n publisher = {{U.S. Dep. Commer.}},\n copyright = {Public Domain} \n}\n```\n:::\n:::\n", | ||
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,14 @@ | ||
| { | ||
| "hash": "e233e051e22afdbc021da71ed102a06e", | ||
| "result": { | ||
| "markdown": "---\ntitle: AKFIN\n---\n\n\n\n\nThese data are used directly by stock assessors and are provided to The [Alaska Fisheries Information Network (AKFIN)]. \n\n## The Alaska Fisheries Information Network\n\nThe [Alaska Fisheries Information Network (AKFIN)](https://www.psmfc.org/program/alaska-fisheries-information-network-akfin) is a regional program that consolidates and supports the collection, processing, analysis, and reporting of fisheries statistics for North Pacific and Alaskan fisheries. AKFIN integrates this information into a single data management system using consistent methods and standardized formats. The Network then reports this information on its website, in various publications, and to researchers. The resulting data enables fishery managers, scientists, and associated agencies to supervise fisheries resources more effectively and efficiently. \n\nIf you are an AFSC employee with access to data through our internal database Oracle server, use this [guide](https://afsc-gap-products.github.io/gap_products/content/akfin-oracle-sql-r.html) to access our data. If not, reach out to AKFIN for a user account. \n\n## Cite this data\n\nUse the below [bibtext citations](https://github.com/afsc-gap-products/gap_products/blob/main/code/CITATION_GAPakfin.bib), as cited in our group's [citation repository](https://github.com/afsc-gap-products/citations/blob/main/cite/bibliography.bib) for citing the data created and maintained in this repo [@GAPakfin]. Add \"note = {Accessed: mm/dd/yyyy}\" to append the day this data was accessed. \n\n\n::: {.cell}\n::: {.cell-output .cell-output-stdout}\n```\n@misc{GAPakfin,\n author = {{Alaska Fisheries Information Network (AKFIN)}}, \n institution = {{NOAA Fisheries Alaska Fisheries Science Center, Goundfish Assessment Program}},\n year = {2023}, \n title = {AFSC Goundfish Assessment Program Design-Based Production Data},\n howpublished = {https://www.psmfc.org/program/alaska-fisheries-information-network-akfin},\n publisher = {{U.S. Dep. Commer.}},\n copyright = {Public Domain} \n}\n```\n:::\n:::\n", | ||
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