How To Create Mutation Diagram In R Or In Any Tools?Please let me know any tools or R packages that can create a mutation diagram showing mutations in protein domains like this figure from the MSKCC cBio Cancer Genomic Portal? Thanks in advance
統計・R・Stan関連ã®æœ¬ã€ç”¨é€”別ã®ã‚ªã‚¹ã‚¹ãƒ¡10冊 - StatModeling Memorandum
2016 - 12 - 24 統計・R・Stan関連ã®æœ¬ã€ç”¨é€”別ã®ã‚ªã‚¹ã‚¹ãƒ¡10冊 書評 R Stan 年末年始å‘ã‘ã«ã€æ¯”較的èªã¿ã‚„ã™ã„本をä¸å¿ƒã«ã‚ªã‚¹ã‚¹ãƒ¡ã—ã¾ã™ã€‚ çµ±è¨ˆå¦ å…¥é–€ 色々èªã‚“ã§ã¿ã¾ã—ãŸãŒã€ç¾åœ¨æ±ºå®šç‰ˆã¨è¨€ãˆã‚‹ã‚‚ã®ã¯å˜åœ¨ã—ãªã„よã†ã«æ€ãˆã¾ã—ãŸã€‚個人的ã«ã¯ã€ã‚·ã‚°ãƒžã¨ ç©åˆ† ã®å¾©ç¿’ã€å ´åˆã®æ•°ãƒ»æ•°ãˆä¸Šã’ã®æ–¹æ³•ã€ç¢ºçŽ‡ã€ç¢ºçŽ‡å¤‰æ•°ã€ç¢ºçŽ‡å¯†åº¦ã€åº¦æ•°åˆ†å¸ƒã¨ ヒストグラムã€ä»£è¡¨å€¤ãƒ»å¹³å‡ãƒ»åˆ†æ•£ã€ç¢ºçŽ‡åˆ†å¸ƒã€åŒæ™‚分布ã€å‘¨è¾ºåˆ†å¸ƒã€ç¢ºçŽ‡å¤‰æ•°ã®å¤‰æ•°å¤‰æ›ã€æ¤œå®šã€æ•£å¸ƒå›³ã¨ç®±ã²ã’図ã€å›žå¸°ã€ç›¸é–¢ã‚ãŸã‚Šã‚’Rãªã©ã‚’使ã„ãªãŒã‚‰ã‚·ãƒ³ãƒ—ルã«èª¬æ˜Žã—ã¦ã„ã本ãŒã‚ã‚‹ã¨ã„ã„ã¨æ€ã†ã®ã§ã™ãŒã€ãªã‹ãªã‹ãƒãƒ©ãƒ³ã‚¹ã®ã¨ã‚ŒãŸã„ã„本ãŒã‚ã‚Šã¾ã›ã‚“。åˆæ©ã®åˆæ©ã—ã‹èª¬æ˜Žã—ã¦ãªã„ã€ã‚°ãƒ©ãƒ•ãŒå°‘ãªã„ã€æ¤œå®šã«ãƒšãƒ¼ã‚¸ã‚’割ãã™ãŽã€åˆ†åŽšã„ã€ã¡ã‚‡ã£ã¨é›£ã—ã„ãªã©ã®ä¸æº€ç‚¹ãŒã‚ã‚Šã¾ã™ã€‚ç«‹ã¡èªã¿ã—ã¦è‡ªåˆ†ã«ã‚ã£ãŸæœ¬ã‚’é¸ã¶ã®ãŒã„ã„ã¨æ€ã„ã¾ã™ã€‚ãƒãƒƒãƒˆã§æ¤œç´¢ã—ã¦èª¿ã¹ã‚‹ã®ã§ã‚‚ã„ã„ã¨æ€ã„ã¾ã™
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Shiny CRUD App | R-bloggers
[This article was first published on ipub » R, and kindly contributed to R-bloggers]. (You can report issue about the content on this page here) Want to share your content on R-bloggers? click here if you have a blog, or here if you don't. In this post, we write a shiny app that lets you display and modify data that is stored in a database table. Shiny and Databases Everybody loves Shiny, and righ
Rã§è§£æžï¼šã‚¿ã‚¤ãƒ ラインをæ写ã—ã¦ã¿ã¾ã›ã‚“ã‹ï¼Ÿã€Œtimelineã€ãƒ‘ッケージ
時系列を示ã™ã€Œã‚¿ã‚¤ãƒ ラインã€ã‚’ç°¡å˜ã«æ写ã§ãるパッケージã®ç´¹ä»‹ã§ã™ã€‚タイムライン作æˆã§æ‚©ã‚“ã§ã„ãŸæ–¹ã«ã‚ªã‚¹ã‚¹ãƒ¡ã®ãƒ‘ッケージã§ã™ã€‚時系列ã ã‘ã§ãªãã€ç™ºç”Ÿã—ãŸã‚¤ãƒ™ãƒ³ãƒˆã‚‚åŒæ™‚ã«æ写ã§ãã¾ã™ã€‚ 本パッケージを利用ã—ã¦æ´å²ã®ç ”究ã ã‘ã§ãªãã€è‡ªåˆ†å²ã‚’プãƒãƒƒãƒˆã—ã¦è§£æžã—ã¦ã¿ã‚‹ã‚‚ã®è‰¯ã„ã‹ã‚‚ã—ã‚Œã¾ã›ã‚“。自分を見ã¤ã‚ç›´ã™è‰¯ã„機会ã‹ã‚‚。 パッケージã®ãƒãƒ¼ã‚¸ãƒ§ãƒ³ã¯0.9。R version 3.2.1ã§ã‚³ãƒžãƒ³ãƒ‰ã‚’確èªã—ã¦ã„ã¾ã™ã€‚ パッケージã®ã‚¤ãƒ³ã‚¹ãƒˆãƒ¼ãƒ«ä¸‹è¨˜ã‚³ãƒžãƒ³ãƒ‰ã‚’実行ã—ã¦ãã ã•ã„。 #パッケージã®ã‚¤ãƒ³ã‚¹ãƒˆãƒ¼ãƒ« install.packages("timeline")実行コマンドデータ例ã¨ãƒ‘ッケージ付属ã®ãƒ‡ãƒ¼ã‚¿ã‚’出力ã™ã‚‹ä¾‹ã§ã™ã€‚詳細ã¯ã‚³ãƒžãƒ³ãƒ‰ã€ãƒ‘ッケージヘルプを確èªã—ã¦ãã ã•ã„。ãƒãƒ¼ã®è‰²ã‚’è¨å®šã™ã‚‹ã‚ªãƒ—ションã¯æœªæŽ¡ç”¨ã§ã™ã€‚ãªãŠã€æœ¬ãƒ‘ッケージã¯å†…部的ã«ggplot2を使用ã—ã¦ã„ã¾ã™ã€‚ #パッケージã®èªã¿è¾¼ã¿ libr
『ã¿ã‚“ãªã®Rã€ï¼ˆåŽŸé¡Œï¼š"R for Everyone"）ã”æµè´ˆã„ãŸã ãã¾ã—㟠- 渋谷駅å‰ã§åƒãデータサイエンティストã®ãƒ–ãƒã‚°
ã¿ã‚“ãªã®R ?データ分æžã¨çµ±è¨ˆè§£æžã®æ–°ã—ã„教科書? 作者: Jared P. Lander,Tokyo.R（å”力）,高柳慎一,牧山幸å²,簑田高志出版社/メーカー: マイナビ発売日: 2015/06/30メディア: å˜è¡Œæœ¬ï¼ˆã‚½ãƒ•ãƒˆã‚«ãƒãƒ¼ï¼‰ã“ã®å•†å“ã‚’å«ã‚€ãƒ–ãƒã‚° (2件) を見る ã¨ã„ã†ã“ã¨ã§ã€è¨³è€…ã®ãŠä¸€äººã§ã‚られる牧山ã•ã‚“ã‹ã‚‰ã”æµè´ˆã„ãŸã ãã¾ã—ãŸï¼ å„所ã®æ›¸è©•ã§ã€Œä»Šå¹´æœ€é«˜ã®R本ã€ã¨ã®å‘¼ã³å£°ã‚‚高ã„本書ã€æ—¢ã«è‰²ã€…レビューãŒå‡ºã¦ã„ã¦åƒ•ãªã‚“ãžãŒã‚ã–ã‚ã–レビューã™ã‚‹ã“ã¨ãªã‚“ã¦ã‚‚ã¯ã‚„ãªã•ãã†ãªã‚“ã§ã™ãŒï¼ˆç¬‘）ã€æ—©é€Ÿç°¡å˜ã«ãƒ¬ãƒ“ューã—ã¦ã¿ã‚ˆã†ã¨æ€ã„ã¾ã™ã€‚ã¡ãªã¿ã«ã“ã‚Œã¾ã§ã«å‡ºã¦ã„るレビューã¯åƒ•ãŒæŠŠæ¡ã—ã¦ã„る範囲ã§ä»¥ä¸‹ã®é€šã‚Šã§ã™*1。 ã–ã£ã¨å†…容を眺ã‚ã¦ã¿ã‚‹ ã§ã¯ã§ã¯ã€ä¸€é€šã‚Šæœ¬æ›¸ã®å†…容を眺ã‚ã¦ã¿ã¾ã—ょã†ã€‚実ã¯ç« ç«‹ã¦ãŒçµæ§‹å¤šãç´°ã‹ãã€ç« ã¨ã„ã†ã‚ˆã‚Šã¯ç¯€ã¿ãŸã„ãªãƒ¬ãƒ™ãƒ«ã§åŒºåˆ‡ã‚‰ã‚Œã¦ã„る箇所ãŒå¤šã„ã®ã§ã€åƒ•ã®æ–¹ã§é©å½“ã«å¤§ã¾ã‹ã«
ã¿ã‚“ãªã®R (ã”æµè´ˆãŠç¤¼) - sfchaos's blog
「ã¿ã‚“ãªã®Rã€ã‚’ã”æµè´ˆã„ãŸã ãã¾ã—ãŸï¼Žã‚ã‚ŠãŒã¨ã†ã”ã–ã„ã¾ã™!! (ç¾åœ¨ï¼Œå†™çœŸãŒæ’®ã‚Œãªã„ã®ã§å¾Œã§è¿½åŠ 予定・・・) ã¿ã‚“ãªã®R -データ分æžã¨çµ±è¨ˆè§£æžã®æ–°ã—ã„教科書- 作者: Jared P. Lander,Tokyo.R（å”力）,高柳慎一,牧山幸å²,簑田高志出版社/メーカー: マイナビ発売日: 2015/06/30メディア: å˜è¡Œæœ¬ï¼ˆã‚½ãƒ•ãƒˆã‚«ãƒãƒ¼ï¼‰ã“ã®å•†å“ã‚’å«ã‚€ãƒ–ãƒã‚° (7件) を見る 本書ã¯"R for everyone"ã®ç¿»è¨³æ›¸ã§ã‚り，Amazon.comã®ãƒšãƒ¼ã‚¸ã‚’見れã°ã‚ã‹ã‚‹ã‚ˆã†ã«åŽŸè‘—ã¯å¤§å¤‰å¥½è©•ã‚’å¾—ã¦ã„ã¾ã™ï¼Žç¿»è¨³è€…ã¯ã¿ãªæ—¥æœ¬ã®R界を代表ã™ã‚‹æ–¹ã€…ã§ã‚り，Tokyo.Rãªã©ã®å‹‰å¼·ä¼šã‚„ブãƒã‚°ï¼Œãƒ‘ッケージ開発ç‰ã§å¤§å¤‰ã”æ´»èºã•ã‚Œã¦ã„ã¾ã™ï¼Žç¿»è¨³è€…ã®æ–¹ã€…ã¨ã¯å€‹äººçš„ãªå‹äººã§ã‚‚ã‚り，ã”本人ãŸã¡ã®ãŠé¡”ã‚’æ€ã„æµ®ã‹ã¹ã¤ã¤æ¥½ã—ã¿ãªãŒã‚‰ä¸€æ°—ã«èªã¾ã›ã¦ã„ãŸã ãã¾ã—ãŸ*1． ç·è©• ã¾ãšæœ€åˆã«ï¼Œã“ã®æœ¬ã¯ã€Œä¸ç´šè€…ã¾ã§ãªã‚‰
Rã§,é•·ã•100ã®æ•°åˆ—ãŒã‚ã£ã¦,連続ã™ã‚‹5個ã®æ•°ã®å’Œã‚’å…¨ã¦(96個)欲ã—ã„ã¨ã,ã©ã†ã™ã‚Œã°è³¢ã„ã‹ãª - My Life as a Mock Quant
リアル・マãƒãƒ¼ãƒœãƒ¼ãƒ«ç•Œéšˆã§ã¯è¶…有åã§ã€çŸ¥ã‚‰ãªã„人ã¯ã‚‚ãã‚Šã¨è¨€ã‚れるブãƒã‚°ã§ã‚ã‚‹ 300億円欲ã—ã„ ã®è‘—者@gg_hatanoæ°ãŒ Rã§, é•·ã•100ã®æ•°åˆ—ãŒã‚ã£ã¦, 連続ã™ã‚‹5個ã®æ•°ã®å’Œã‚’å…¨ã¦(96個)欲ã—ã„ã¨ã, ã©ã†ã™ã‚Œã°è³¢ã„ã‹ãªâ€” ã¯ãŸã‚€ (@gg_hatano) 2014, 4月 28 ãªã“ã¨ã‚’å‘Ÿã„ã¦ã„ãŸã®ã§ã€@gg_hatano library(xts) rollapplyr(1:10, 3, sum)ãªã‚³ãƒ¼ãƒ‰ã§ã€[1] 6 9 12 15 18 21 24 27ã¨ãªã‚Šã¾ã™ã€‚ã‚ã¨ã¯â€¦ã‚ã‹ã‚‹ãªï¼Ÿâ€” パイレーツ・オブ・テラモナギ (@teramonagi) 2014, 4月 28 ã£ã¦å›žç”ã—ãŸã‚“ã ã‘ã©ã€æ¡ƒå°»ãŠã˜ã•ã‚“ãŒ@gg_hatano @teramonagi library(RcppRoll);roll_sum(1:10,n=3)ã‚‚ãˆãˆã§â€” 尻白 (@dichika) 2014,
window functionã¾ã¨ã‚ - ç›†æ ½æ—¥è¨˜
dplyrã‚„RcppRollã«å®Ÿè£…ã•ã‚Œã¦ã„ã‚‹window functionã¯ã†ã¾ã使ãˆã°ä¾¿åˆ©ã§ã™ã€‚ ã¨ã„ã†ã“ã¨ã§ä»¥ä¸‹ã«ã¾ã¨ã‚ã¾ã—ãŸã€‚ 実例ã¯ä¸‹è¨˜ã‚’ã”覧ãã ã•ã„。 http://cran.r-project.org/web/packages/dplyr/vignettes/window-functions.html 原則ã¨ã—ã¦dplyrã«å…¥ã£ã¦ã„ã‚‹ã‚‚ã®ã‚’掲載ã—ã¦ã„ã¾ã™ãŒã€ãƒãƒ¼ãƒªãƒ³ã‚°å‡¦ç†ã«é–¢ã—ã¦ã¯RcppRollパッケージã®ã‚¤ãƒ³ã‚¹ãƒˆãƒ¼ãƒ«ãŒå¿…è¦ã§ã™ã€‚ 関数å 内容 備考 row_number è¡Œç•ªå· min_rank é †ä½ï¼ˆã‚¿ã‚¤ã‚’考慮ã™ã‚‹ï¼‰ dense_rank é †ä½ï¼ˆã‚¿ã‚¤ã‚’考慮ã—ãªã„） percent_rank é †ä½ã®ï¼… cume_dist é †ä½ã®ï¼…ç©ã¿ä¸Šã’ ntile 指定ã—ãŸç¾¤æ•°ã«åˆ†å‰²ã™ã‚‹ lead å…ˆé を消ã—ã¦æœ«å°¾ã«NAã‚’åŠ ãˆã‚‹ lag 末尾を消ã—ã¦å…ˆé ã«NAã‚’åŠ ãˆã‚‹ cumsum 部分
Window functions
Window functions A window function is a variation on an aggregation function. Where an aggregation function, like sum() and mean(), takes n inputs and return a single value, a window function returns n values. The output of a window function depends on all its input values, so window functions don’t include functions that work element-wise, like + or round(). Window functions include variations on
ggbio - Visualize genomic data - Easy Guides - Wiki - STHDA
Add gene model track Gene model is composed of genetic features CDS, UTR, introns, exons and non-genetic region. ggbio supports three methods to make gene model track: OrganismDb object: recommended, support gene symbols and other combination of columns as label. TranscriptDb object: don’t support gene symbol labeling. GRangesList object: flexible, if you don’t have annotation package available fo
How to expand color palette with ggplot and RColorBrewer
Histograms and bar charts are almost always a part of data analysis presentation. If it is made with R ggplot package functions geom_histogram() or geom_bar() then bar chart may look like this: The elegance of ggplot functions realizes in simple yet compact expression of visualization formula while hiding many options assumed by default. Hiding doesn't mean lacking as most options are just a step
Rパッケージ作æˆãƒãƒ‰ãƒªãƒ¼é¢¨: devtools, roxygen2, testthatã‚’æ·»ãˆã¦
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Show individ variation after ANNOWAR
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GitHub - zhengxwen/SNPRelate: R package: parallel computing toolset for relatedness and principal component analysis of SNP data (Development version only)
SSSSLIDE
Plagnol lab's blog: Non-invasive pre-natal testing for chromosomal abnormalities: bioinformatics and the UK NHS process
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