November 2018
Intermediate to advanced
272 pages
6h 51m
Japanese
book
エレガントなSciPy ―Pythonによる科学技術計算
by Juan Nunez-Iglesias, Stéfan van der Walt, Harriet Dashnow, 山崎 邦子, 山崎 康宏
Content preview from エレガントなSciPy ―Pythonによる科学技術計算
Become an O’Reilly member and get unlimited access to this title plus top books and audiobooks from O’Reilly and nearly 200 top publishers, thousands of courses curated by job role, 150+ live events each month,
O’Reilly covers everything we've got, with content to help us build a world-class technology community, upgrade the capabilities and competencies of our teams, and improve overall team performance as well as their engagement.I wanted to learn C and C++, but it didn't click for me until I picked up an O'Reilly book. When I went on the O’Reilly platform, I was astonished to find all the books there, plus live events and sandboxes so you could play around with the technology.I’ve been on the O’Reilly platform for more than eight years. I use a couple of learning platforms, but I'm on O'Reilly more than anybody else. When you're there, you start learning. I'm never disappointed.I'm always learning. So when I got on to O'Reilly, I was like a kid in a candy store. There are playlists. There are answers. There's on-demand training. It's worth its weight in gold, in terms of what it allows me to do.
31
2
章
NumPy
と
SciPy
を
用いた分位数正規化
スペースランドの深い神秘を最初のうち理解できなくても、悲嘆にくれることはありません。段々とわかっ
てくるでしょう。
―
エドウィン・A・アボット『フラットランド多次元の冒険』
本章では、引き続き「
1
章 エレガントな
NumPy
：科学
Python
の基礎」の遺伝子発現データ
の解析を行いますが、目的は少し変わり、各患者の遺伝子発現プロファイル（測定された遺伝子
発現量の完全ベクトル）を使って彼らの予想生存率を予測することになります。完全なプロファ
イルを使うためには、
1
章の
RPKM
が提供するよりもさらに強力な正規化が必要です。ここでは
RPKM
の代わりに分位数正規化（
https://en.wikipedia.org/wiki/Quantile_normalization
）とい
う、計測値を特定の確率分布に強制的に従わせる手法を使います。この手法は、強い仮定を強制し
ます。すなわち、データが特定の理想的な分布に従っていない場合は、強制的にデータをその分布
に合わせるのです。なんだかちょっとズルみたいですが、重要なのは母集団の中での相対的な値の
変化で、どの分布に従うかはどうでもよいという場合、多くのケースで使える単純かつ有用な方法
なのです。例えば、
Bolstad
らが示したところ（
http://bit.ly/2tmz3xS
）によると、この手法はマ
イクロアレイデータ中の既知の発現量を見事に復元しました。
本章では、がんゲノムアトラス（
TCGA
）プロジェクトの
Become an O’Reilly member and get unlimited access to this title plus top books and audiobooks from O’Reilly and nearly 200 top publishers, thousands of courses curated by job role, 150+ live events each month,
and much more.
Read now
Unlock full access
More than 5,000 organizations count on O’Reilly
O’Reilly covers everything we've got, with content to help us build a world-class technology community, upgrade the capabilities and competencies of our teams, and improve overall team performance as well as their engagement.Julian F.
I wanted to learn C and C++, but it didn't click for me until I picked up an O'Reilly book. When I went on the O’Reilly platform, I was astonished to find all the books there, plus live events and sandboxes so you could play around with the technology.Addison B.
I’ve been on the O’Reilly platform for more than eight years. I use a couple of learning platforms, but I'm on O'Reilly more than anybody else. When you're there, you start learning. I'm never disappointed.Amir M.
I'm always learning. So when I got on to O'Reilly, I was like a kid in a candy store. There are playlists. There are answers. There's on-demand training. It's worth its weight in gold, in terms of what it allows me to do.