frasyr
The Japanese Fisheries Research Agency provides the method for calculating sustainable yield with R.
https://github.com/ichimomo/frasyr
Category: Biosphere
Sub Category: Marine Life and Fishery
Last synced: about 3 hours ago
JSON representation
Repository metadata
Fisheries Research Agency (FRA) provides the method for calculating sustainable yield (SY) with R
- Host: GitHub
- URL: https://github.com/ichimomo/frasyr
- Owner: ichimomo
- License: gpl-3.0
- Created: 2019-06-10T05:39:17.000Z (almost 6 years ago)
- Default Branch: dev
- Last Pushed: 2025-04-08T02:05:48.000Z (20 days ago)
- Last Synced: 2025-04-22T00:07:17.570Z (6 days ago)
- Language: R
- Homepage: https://ichimomo.github.io/frasyr/
- Size: 401 MB
- Stars: 17
- Watchers: 8
- Forks: 22
- Open Issues: 80
- Releases: 14
-
Metadata Files:
- Readme: README.md
- License: LICENSE
README.md
frasyr
- Fisheries Research Agency (FRA) provides the method for calculating sustainable yield (SY) with R
- VPAを用いた資源量推定と,その推定結果をもとにしてMSYを基礎とした目標管理基準値を計算するためのRのパッケージです.開発途中のものであること,ご承知おきください.
使い方など
https://ichimomo.github.io/main/ に一括した情報へのリンクがあります
インストール方法
# devtoolsをインストールしていない人はインストールする
install.packages("devtools")
# マスター版(最新・安定版)をインストールする場合
devtools::install_github("ichimomo/frasyr")
# 開発中の最新版をインストールする場合(バグ可能性あり!)
# ref=""で開発中のブランチを指定します。だいたい、"dev"ブランチに開発中のものがあります
devtools::install_github("ichimomo/frasyr", ref="dev")
# 過去の安定版を指定してインストールする場合
# @以下にリリースバージョンを指定します
devtools::install_github("ichimomo/[email protected]")
# 以上の操作をしてfrasyrをインストールしてから、以下のコマンドで呼び出します
library(frasyr)
リリースバージョン
- v1.00 : future-rvpaから移動してきたほぼそのままのバージョン
- v1.10 : future.vpaにuse.MSEオプションを追加
- v1.20 : 2019年アジ・イワシ事前検討会用
- v2.00 : 2020年アジ・イワシ研究機関会議用(事前配布版)
- 将来予測のメイン関数をfuture.vpaからfuture_vpaに移行。基本的な使い方は以下のマニュアルのリンク先を参照のこと
- v2.01 : 2020年アジ・イワシ研究機関会議用(最終版)
- fit.parでL1の場合のSDをRMSEに統一
- v2.1.0.0 : 2020年度資源評価会議用プロトタイプバージョン
- VPAを用いたモデル診断スクリプトをvignetteに追加
- 途中でプラスグループが変わる(対馬マイワシ)VPAの計算を修正
- ほか、関数のテストを充実。
マニュアル
これらはRコマンドで以下のようにしても見れます。
devtools::install_github("ichimomo/frasyr", ref="dev", build_vignettes=TRUE) # インストールするときにvignetteを作る(時間かかります)
library(frasyr)
vignette(package="frasyr") # 利用可能なvignetteを調べる
vignette("vpa",package="frasyr") # VPAの実施のしかた
vignette("Diagnostics-for-VPA",package="frasyr") # VPAのモデル診断
=======
frasyr_tool群の全体説明はこちら
Owner metadata
- Name: Momoko Ichinokawa
- Login: ichimomo
- Email:
- Kind: user
- Description:
- Website: https://ichimomo.github.io/main/
- Location: Yokohama
- Twitter:
- Company: National Research Institute of Fisheries Science, FRA
- Icon url: https://avatars.githubusercontent.com/u/44047915?u=f7a4f6b7092681aa52d547f80713c33aa8280172&v=4
- Repositories: 4
- Last ynced at: 2023-03-03T08:07:10.257Z
- Profile URL: https://github.com/ichimomo
GitHub Events
Total
- Create event: 9
- Release event: 1
- Issues event: 12
- Watch event: 1
- Delete event: 2
- Issue comment event: 12
- Push event: 39
- Gollum event: 2
- Pull request review comment event: 7
- Pull request review event: 12
- Pull request event: 28
- Fork event: 1
Last Year
- Create event: 9
- Release event: 1
- Issues event: 12
- Watch event: 1
- Delete event: 2
- Issue comment event: 12
- Push event: 39
- Gollum event: 2
- Pull request review comment event: 7
- Pull request review event: 12
- Pull request event: 28
- Fork event: 1
Committers metadata
Last synced: 6 days ago
Total Commits: 1,339
Total Committers: 23
Avg Commits per committer: 58.217
Development Distribution Score (DDS): 0.485
Commits in past year: 43
Committers in past year: 7
Avg Commits per committer in past year: 6.143
Development Distribution Score (DDS) in past year: 0.698
Name | Commits | |
---|---|---|
Momoko Ichinokawa | i****5@g****m | 690 |
fshin3 | f****3@g****m | 123 |
ShotaNishijima | n****h@g****m | 118 |
Akira Hayashi | s****d@m****m | 109 |
Mitsuyo Miyagawa | m****i@g****m | 76 |
Kohei Hamabe | h****k@a****p | 73 |
Kohei Hamabe | 0****0@m****p | 33 |
Osamu Sakai | s****s@f****p | 20 |
Kohei Hamabe | h****a@g****m | 18 |
Akira Hayashi | a****7@g****m | 17 |
JK-junkin | k****j@a****p | 14 |
Shin FUKUI | f****3@n****l | 13 |
Hiroshi Okamura | 4****i | 8 |
hamabek | h****0@f****p | 7 |
AnguillaJaponica | z****7@g****m | 4 |
ichimomo | i****9@f****p | 4 |
MIYAGAWA Mitsuyo | 0****8@f****p | 3 |
Junichi Imoto | j****o@1****l | 2 |
ichimomo | i****o@a****p | 2 |
snaoto | n****d@g****m | 2 |
akihirao | a****o@g****m | 1 |
Kohei Hamabe | 6****E | 1 |
snaoto | 3****o | 1 |
Committer domains:
- fra.go.jp: 3
- affrc.go.jp: 3
- gmai.com: 1
- fra.affrc.go.jp: 1
- ms.fra.affrc.go.jp: 1
- me.com: 1
Issue and Pull Request metadata
Last synced: 1 day ago
Total issues: 77
Total pull requests: 212
Average time to close issues: 9 months
Average time to close pull requests: 12 days
Total issue authors: 8
Total pull request authors: 7
Average comments per issue: 1.34
Average comments per pull request: 0.33
Merged pull request: 194
Bot issues: 0
Bot pull requests: 0
Past year issues: 11
Past year pull requests: 29
Past year average time to close issues: 3 days
Past year average time to close pull requests: 23 days
Past year issue authors: 2
Past year pull request authors: 5
Past year average comments per issue: 0.64
Past year average comments per pull request: 0.17
Past year merged pull request: 27
Past year bot issues: 0
Past year bot pull requests: 0
Top Issue Authors
- ichimomo (40)
- Rindrics (17)
- ShotaNishijima (8)
- osamusakai (4)
- KoHMB (3)
- JK-junkin (2)
- sayokoisu (2)
- fshin3 (1)
Top Pull Request Authors
- ichimomo (140)
- Rindrics (33)
- ShotaNishijima (14)
- fshin3 (11)
- mmitsuyo (8)
- KoHMB (4)
- OkamuraHiroshi (2)
Top Issue Labels
- help wanted (4)
- bug (3)
- future improvement (2)
Top Pull Request Labels
Dependencies
- R >= 3.5.0 depends
- EnvStats * imports
- GGally * imports
- RcppRoll * imports
- TMB * imports
- assertthat * imports
- covr * imports
- doParallel * imports
- dplyr * imports
- forcats * imports
- foreach * imports
- formattable * imports
- ggplot2 * imports
- ggrepel * imports
- gridExtra * imports
- magrittr * imports
- patchwork * imports
- purrr * imports
- readr * imports
- rmutil * imports
- splus2R * imports
- stringr * imports
- testthat * imports
- tibble * imports
- tidyr * imports
- knitr * suggests
- rmarkdown * suggests
- actions/checkout v2 composite
- actions/upload-artifact master composite
- r-lib/actions/setup-pandoc v2 composite
- r-lib/actions/setup-r v2 composite
- actions/cache v1 composite
- actions/checkout v2 composite
- r-lib/actions/setup-pandoc v2 composite
- r-lib/actions/setup-r v2 composite
Score: 7.7102051944325325