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
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21
1.4 正規化
1.4.2
遺伝子間の正規化
遺伝子間の比較を試みるときにも問題にぶつかる場合があります。遺伝子のリード数はその遺伝
子長に比例します。仮に遺伝子
B
の長さが遺伝子
A
の
2
倍であるとします。どちらも同じ標本中
で似たような量で発現しています（つまり、どちらも似たような数の
mRNA
分子を生成していま
す ）。
RNA
シーケンシング実験では、転写された
mRNA
を短く切断して、その断片のプールから
リードを抽出することを思い出してください。すなわち、ある遺伝子の長さが
2
倍あると、
2
倍の
数の断片を生成することになり、それを抽出する確率も
2
倍になります。したがって、遺伝子
B
は遺伝子
A
の
2
倍のリード数があると予期されます（図
1-11
）。このため、異なる遺伝子同士の
発現量を比較したければ、何らかの正規化を行う必要があります。■
遺伝子長とリード数の関係が本章のデータセットでも成り立つか調べてみましょう。まず、プ
ロット用のユーティリティ関数を定義します。
この
Python 3
だけの特徴に注目！（
23
ページの囲み「
Python 3
のヒント」を参照）
def binned_boxplot(x, y, *, # check out this Python 3 exclusive! (*see tip box)
xlabel='gene length (log scale)',
ylabel='average log counts'):
"""Plot the distribution of `y` ...
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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.