{"id":46059,"date":"2022-11-17T01:47:26","date_gmt":"2024-02-02T18:35:07","guid":{"rendered":"https:\/\/www.silicloud.com\/zh\/blog\/46059-2\/"},"modified":"2024-04-29T01:03:20","modified_gmt":"2024-04-28T17:03:20","slug":"46059-2","status":"publish","type":"post","link":"https:\/\/www.silicloud.com\/zh\/blog\/46059-2\/","title":{"rendered":""},"content":{"rendered":"

\u5fc5\u8981\u306a\u74b0\u5883\u306e\u69cb\u7bc9<\/h2>\n

\u74b0\u5883
\nWin10 pro 64bit
\nRAM 16 GB
\njupyter notebook
\npython3<\/p>\n

\u4eee\u60f3\u74b0\u5883\u3092\u4f5c\u6210<\/h2>\n

Windows: \u300c\u30b9\u30bf\u30fc\u30c8\u300d > \u300c\u3059\u3079\u3066\u306e\u30d7\u30ed\u30b0\u30e9\u30e0\u300d > \u300cAnaconda3 (64-bit)\u300d > \u300cAnaconda Prompt\u300d\u304b\u3089\u5b9f\u884c
\nconda create -n bioinformatics biopython biopython=1.70<\/p>\n

\u30d0\u30a4\u30aa\u30a4\u30f3\u30d5\u30a9\u30de\u30c6\u30a3\u30af\u30b9\u74b0\u5883\u306e\u30a2\u30af\u30c6\u30a3\u30d6\u5316
\nconda activate bioinformatics<\/p>\n

\u30ea\u30dd\u30b8\u30c8\u30ea\u3092\u30bd\u30fc\u30b9\u30b3\u30fc\u30c9\u306b\u8ffd\u52a0<\/p>\n

conda config --add channels bioconda\r\nconda config --add channels conda-forge\r\n<\/code><\/pre>\n
\u30b3\u30a2\u306b\u306a\u308b\u30bd\u30d5\u30c8\u30a6\u30a7\u30a2\u30d1\u30c3\u30b1\u30fc\u30b8\u3092\u8ffd\u52a0<\/p>\n
conda install scipy matplotlib jupyter-notebooks pip pandas cython numba scikit-learn seaborn pysam pyvcf simuPOP dendropy rpy2\r\n<\/code><\/pre>\n
\u65e9\u3005\u306bjupyter-notebooks pysam\u304c\u5165\u3089\u306a\u3044\u3067\u3053\u3051\u308b
\n\u2192\u3057\u3087\u3046\u304c\u306a\u3044\u306e\u3067\u5f8c\u3067\u5225\u306b\u5165\u308c\u308b\u3053\u3068\u306b\u3059\u308b
\n\u305d\u3082\u305d\u3082\u540d\u524d\u304c\u9055\u3046\u3089\u3057\u3044jupyter-notebooks\u2192jupyter
\n\u4fee\u6b63\u3057\u305f\u3089\u52d5\u3044\u305f<\/p>\n
conda install scipy matplotlib jupyter pip pandas cython numba scikit-learn seaborn pysam pyvcf simuPOP dendropy rpy2\r\n<\/code><\/pre>\n
pysam\u306fpip\u3067\u3082\u3053\u3051\u308b
\npysam\u306e\u30a4\u30f3\u30b9\u30c8\u30fc\u30eb\u306b\u306fLinux\u3082\u3057\u304f\u306fmacOS\u304c\u5fc5\u8981\u307f\u305f\u3044\u3001\u30ac\u30fc\u30f3
\nPySAM\u30d0\u30fc\u30b8\u30e7\u30f32.2.0\u306fWindows\u306e64\u30d3\u30c3\u30c8Python\u30d0\u30fc\u30b8\u30e7\u30f33.5\u4ee5\u964d\u306ePyPi\u3067\u5229\u7528\u3067\u304d\u308b\u3089\u3057\u3044\u306e\u3067\u3001\u3053\u308c\u3092\u5165\u308c\u3066\u307f\u308b<\/p>\n
pip install nrel-pysam\r\n<\/code><\/pre>\n
\u7121\u4e8b\u306b\u7a81\u7834<\/p>\n
\u6b21\u306fR\u74b0\u5883\u3092\u5165\u308c\u308b\u306e\u3060\u304c\u3001\u672c\u306e\u8a18\u8ff0\u304c\u9593\u9055\u3048\u3066\u3044\u308b\u306e\u3067\u3001Docker\u3092\u8997\u304d\u306a\u304c\u3089\u529b\u696d\u3067\u89e3\u6c7a\u3057\u3066\u307f\u308b<\/p>\n
conda install r r-ggplot2 r-irkernel r-essentials r-gridextra rstudio\r\n<\/code><\/pre>\n
\u5f8c\u3067ggplot2\u306e\u30d0\u30fc\u30b8\u30e7\u30f3\u3092\u76f4\u3059\u7fbd\u76ee\u306b<\/p>\n
conda install r-ggplot2==2.2.1\r\n<\/code><\/pre>\n
\u3053\u3053\u3067\u30ab\u30fc\u30cd\u30eb\u3092\u5207\u308a\u66ff\u3048\u3088\u3046\u3068\u3057\u3066\u3082\u5207\u308a\u66ff\u3048\u3089\u308c\u305a
\n\u5207\u308a\u66ff\u3048\u308b\u305f\u3081\u306e\u30bd\u30d5\u30c8\u3092\u8ffd\u52a0<\/p>\n
pip install environment_kernels\r\n<\/code><\/pre>\n
\u4eee\u60f3\u74b0\u5883\u306e\u78ba\u8a8d<\/p>\n
conda info -e\r\n<\/code><\/pre>\n
\u3068\u308a\u3042\u3048\u305a\u74b0\u5883\u306f\u5927\u4e08\u592b\u305d\u3046<\/p>\n
\u306a\u306e\u3067jupyter notebook\u306e\u8a2d\u5b9a\u30d5\u30a1\u30a4\u30eb\u3092\u4f5c\u308b
\njupyter notebook –generate-config
\nanaconda3\u304c\u3042\u308b\u3068\u3053\u308d\u306b\/.jupyter\/jupyter_notebook_config.py\u304c\u3067\u304d\u3066\u3044\u308b\u306e\u3067\u4e0b\u8a18\u3092\u8ffd\u8a18
\nc.EnvironmentKernelSpecManager.conda_env_dirs = [‘\/Users\/username\/anaconda\/envs\/’ ]
\n\u4e0a\u306e\u5de5\u7a0b\u306f\u3044\u3089\u306a\u3044\u3053\u3068\u304c\u767a\u899a<\/p>\n
\u4f5c\u6210\u3057\u305f\u30ab\u30fc\u30cd\u30eb\u3092\u8ffd\u52a0\u3059\u308b<\/p>\n
ipython kernel install --user --name=bioinformatics --display-name=bioinformatics\r\n<\/code><\/pre>\n
\u8ffd\u52a0\u3055\u308c\u305f\u306e\u304b\u78ba\u8a8d<\/p>\n
jupyter kernelspec list\r\n<\/code><\/pre>\n
\u3053\u308c\u3067\u7121\u4e8b\u306b\u5207\u308a\u66ff\u3048\u5b8c\u4e86
\n\u3053\u306e\u5f8c\u3001\u4e00\u5ea6Jupyter notebook\u3092\u30ed\u30b0\u30a2\u30a6\u30c8\u3057\u3066\u3001\u4eca\u4f5c\u3063\u305f\u74b0\u5883\u304b\u3089Jupyter notebook\u3092\u8d77\u52d5\u3057\u3066\u518d\u5ea6\u30b9\u30bf\u30fc\u30c8
\n\u2191\u3053\u3053\u3067\u6b7b\u306c\u307b\u3069\u30cf\u30de\u3063\u305f(;’\u2200’)<\/p>\n","protected":false},"excerpt":{"rendered":"
\u5fc5\u8981\u306a\u74b0\u5883\u306e\u69cb\u7bc9 \u74b0\u5883 Win10 pro 64bit RAM 16 GB jupyter notebook  […]<\/p>\n","protected":false},"author":12,"featured_media":0,"comment_status":"closed","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[1],"tags":[],"class_list":["post-46059","post","type-post","status-publish","format-standard","hentry","category-uncategorized"],"yoast_head":"\n- Blog - Silicon Cloud<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.silicloud.com\/zh\/blog\/46059-2\/\" \/>\n<meta property=\"og:locale\" content=\"zh_CN\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:description\" content=\"\u5fc5\u8981\u306a\u74b0\u5883\u306e\u69cb\u7bc9 \u74b0\u5883 Win10 pro 64bit RAM 16 GB jupyter notebook […]\" \/>\n<meta property=\"og:url\" content=\"https:\/\/www.silicloud.com\/zh\/blog\/46059-2\/\" \/>\n<meta property=\"og:site_name\" content=\"Blog - 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