A**H
发帖数: 4797 | 1 我要normalize NGS read count with GC-content
这里有一篇文章
http://journals.plos.org/plosone/article?id=10.1371/journal.pon
中间有些不懂。看了些网站教材，还不是很懂，到这里问一下。只有包子答谢了。
GC-content correction
第一句
To correct for sequencing biases that arise due to preferential sequencing
of certain levels of GC content, we normalize the read depth based on the GC
content of each bin.
第二句
These values incorporate mapability information, such that we only consider
the GC content of mappable bases.
第三句
To correct the data, we first calculate the average read depth for bins with
GC content in intervals of 0.1%.
第四句
We then use the LOESS method to fit a regression line to this data.
第五句
The correction value for each bin is equal to the difference between the
median read depth and the average read depth of that bin.
第六句
We then scale the values such that the correction is neutral with respect to
the total number of reads.
请问一下，这第五句和第六句哪里用到了LOESS的结果？第五句是说，对于每一个bin，
把median-average作为correction value，然后第六句怎么scale the values呢？是不
是这里scale要用到LOESS的predict？
谢谢 | a**r
发帖数: 38 | | A**H
发帖数: 4797 | 3 能展开说说吗？谢谢
【在 a**r 的大作中提到】
: 第五句
| a**r
发帖数: 38 | 4 You are welcome on Oct.21
http://kresgeeye.org/research/ligon-research-center-of-vision/
Kresge Eye Institute, in association with the Anatomy/Cell Biology
Department, is organizing its second annual Vision Research Workshop on Oct.
21. This workshop highlights research accomplishments of our graduate
students, postdoctoral fellows, residents and clinical fellows. The goal is
to provide an outstanding opportunity for the vision community on the WSU
campus to interact with each other and exchange ideas for possible
collaboration.
Kang Zhang, M.D., Ph.D., professor of Ophthalmology, chief of Ophthalmic
Genetics, University of California San Diego, has agreed to be our clinical
translational research lecturer for this workshop.
At this time,,,,,, | A**H
发帖数: 4797 | 5 您这云里雾里的我不知所云啊。。。
Oct.
is
【在 a**r 的大作中提到】
: You are welcome on Oct.21
: http://kresgeeye.org/research/ligon-research-center-of-vision/
: Kresge Eye Institute, in association with the Anatomy/Cell Biology
: Department, is organizing its second annual Vision Research Workshop on Oct.
: 21. This workshop highlights research accomplishments of our graduate
: students, postdoctoral fellows, residents and clinical fellows. The goal is
: to provide an outstanding opportunity for the vision community on the WSU
: campus to interact with each other and exchange ideas for possible
: collaboration.
: Kang Zhang, M.D., Ph.D., professor of Ophthalmology, chief of Ophthalmic
|
|
