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 (over 6 years ago)
- Default Branch: dev
- Last Pushed: 2026-02-13T05:37:03.000Z (8 days ago)
- Last Synced: 2026-02-18T09:54:14.494Z (3 days ago)
- Language: R
- Homepage: https://ichimomo.github.io/frasyr/
- Size: 409 MB
- Stars: 18
- Watchers: 8
- Forks: 23
- Open Issues: 83
- 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")
# 開発中の最新版をインストールする
# 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/frasyr@v1.00")
# 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
最新のリリース状況についてはこちらを参照ください https://github.com/ichimomo/frasyr/releases
以下は過去のリリースです
- 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
- 将来予測関数の使い方:wiki
=======
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: 16
- Commit comment event: 1
- Release event: 1
- Delete event: 2
- Pull request event: 39
- Fork event: 2
- Issues event: 15
- Watch event: 1
- Issue comment event: 13
- Push event: 56
- Gollum event: 2
- Pull request review comment event: 7
- Pull request review event: 12
Last Year
- Pull request event: 14
- Fork event: 2
- Issues event: 6
- Watch event: 1
- Issue comment event: 7
- Push event: 23
- Pull request review event: 1
- Pull request review comment event: 1
- Gollum event: 2
- Create event: 7
- Commit comment event: 1
Committers metadata
Last synced: 6 days ago
Total Commits: 1,401
Total Committers: 23
Avg Commits per committer: 60.913
Development Distribution Score (DDS): 0.501
Commits in past year: 43
Committers in past year: 5
Avg Commits per committer in past year: 8.6
Development Distribution Score (DDS) in past year: 0.535
| Name | Commits | |
|---|---|---|
| Momoko Ichinokawa | i****5@g****m | 699 |
| ShotaNishijima | n****h@g****m | 127 |
| fshin3 | f****3@g****m | 123 |
| Akira Hayashi | s****d@m****m | 117 |
| Mitsuyo Miyagawa | m****i@g****m | 76 |
| Kohei Hamabe | h****k@a****p | 73 |
| ichimomo | i****9@f****p | 36 |
| 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 |
| hamabek | h****0@f****p | 10 |
| Hiroshi Okamura | 4****i | 8 |
| AnguillaJaponica | z****7@g****m | 4 |
| MIYAGAWA Mitsuyo | 0****8@f****p | 4 |
| 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: 7 days ago
Total issues: 63
Total pull requests: 235
Average time to close issues: 12 months
Average time to close pull requests: 23 days
Total issue authors: 8
Total pull request authors: 8
Average comments per issue: 1.17
Average comments per pull request: 0.29
Merged pull request: 201
Bot issues: 0
Bot pull requests: 0
Past year issues: 3
Past year pull requests: 21
Past year average time to close issues: 3 days
Past year average time to close pull requests: 15 days
Past year issue authors: 2
Past year pull request authors: 5
Past year average comments per issue: 0.67
Past year average comments per pull request: 0.1
Past year merged pull request: 10
Past year bot issues: 0
Past year bot pull requests: 0
Top Issue Authors
- ichimomo (36)
- Rindrics (11)
- ShotaNishijima (6)
- osamusakai (4)
- KoHMB (3)
- JK-junkin (1)
- fshin3 (1)
- sayokoisu (1)
Top Pull Request Authors
- ichimomo (148)
- Rindrics (36)
- mmitsuyo (16)
- ShotaNishijima (12)
- fshin3 (10)
- KoHMB (7)
- YagiTatsunori (4)
- OkamuraHiroshi (2)
Top Issue Labels
- help wanted (2)
- future improvement (2)
- bug (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/cache v1 composite
- actions/checkout v2 composite
- r-lib/actions/setup-pandoc v2 composite
- r-lib/actions/setup-r v2 composite
- actions/checkout v4 composite
- r-lib/actions/check-r-package v2 composite
- r-lib/actions/setup-pandoc v2 composite
- r-lib/actions/setup-r v2 composite
- r-lib/actions/setup-r-dependencies v2 composite
- r-lib/actions/setup-tinytex v2 composite
- actions/checkout v4 composite
- actions/upload-artifact v4 composite
- r-lib/actions/setup-r v2 composite
- r-lib/actions/setup-r-dependencies v2 composite
Score: 7.750614732770409