l**********1
发帖数: 5204 | 1 >不知道有没有像Rcmdr那种有窗口的
PACKAGE，或一步步的教材之类的
please go to:
//www.stat.berkeley.edu/users/statlabs/software.html
>我现在做的是ILLUMINA的beadchip，R上面的一
些PACKAGE很多都是针对AFFIMATRIX，因为是2channel的HUMANOMNI 系列的，别人推荐
做LOWESS，不知道，你有什么高见，
not stuff 高见
but you can try this one lumi package:
//www.bioconductor.org/packages/2.8/bioc/vignettes/lumi/inst/doc/lumi.pdf
or 2011 Edinburgh Univ PhD thesis which used lumi package:
//www.era.lib.ed.ac.uk/handle/1842/5541
full text link:
//www.era.lib.ed.ac.uk/bitstream/1842/5541/2/... 阅读全帖 |
|
l**********1
发帖数: 5204 | 2 >不知道有没有像Rcmdr那种有窗口的
PACKAGE，或一步步的教材之类的
please go to:
//www.stat.berkeley.edu/users/statlabs/software.html
>我现在做的是ILLUMINA的beadchip，R上面的一
些PACKAGE很多都是针对AFFIMATRIX，因为是2channel的HUMANOMNI 系列的，别人推荐
做LOWESS，不知道，你有什么高见，
not stuff 高见
but you can try this one lumi package:
//www.bioconductor.org/packages/2.8/bioc/vignettes/lumi/inst/doc/lumi.pdf
or 2011 Edinburgh Univ PhD thesis which used lumi package:
//www.era.lib.ed.ac.uk/handle/1842/5541
full text link:
//www.era.lib.ed.ac.uk/bitstream/1842/5541/2/... 阅读全帖 |
|
e****p
发帖数: 354 | 3 俺对BIOINFO之前是一点不通，但老板要做SNP ARRAY，刚自学R一个月，哪位达人知道
如何做LOWESS normalization，有没有什么R code或者例子可以套。。 |
|
e****p
发帖数: 354 | 4 俺对BIOINFO之前是一点不通，但老板要做SNP ARRAY，刚自学R一个月，哪位达人知道
如何做LOWESS normalization，有没有什么R code或者例子可以套。。 |
|
y**********n
发帖数: 478 | 5 library(LPE)
lowess.normalize(x,y) |
|
G***G
发帖数: 16778 | 6 what function in R can do the lowess normalization ?
thank you. |
|
|
s*******f
发帖数: 757 | 8 我曾经在LOWESS买过一种黏胶，只要放在蚂蚁经常路过的地方就可以。
挺好用的。你可以问他们的售货员。 |
|
w**f
发帖数: 7794 | 9 大家学历都挺高，自然理解我的意思，
我老婆没带热干面，据我所知她回去也没吃。
bbq炉子最近应该快打折处理了，可以经常到walmart,
homedepot, lowess之类的地方逛逛 |
|
w**********y
发帖数: 1691 | 10 I agree with casact.
As I know in my company, people make the judgment subjectively by their
market sense and whether the model fitting is meaningful and explainable. It
is similar when they do feature selection. They just try, try and try. Try
different categorizing, different models, linear or nonlinear, and finally
analyze based on the output tabulation and simply p-value.
They never use some advanced statistical methods. The way they utilize
smoothing methods (Spline, LOWESS..), Simulation ( |
|
l**********1
发帖数: 5204 | 11 R code package:
Earlier
sma package:
FTP//ftp.auckland.ac.nz/pub/software/CRAN/doc/packages/sma.pdf
//www.stat.berkeley.edu/users/sandrine/Docs/Papers/springer02.Rnw
//statwww.epfl.ch/davison/teaching/Microarrays/lab/normalization_eda.html
later
limma package
//bioconductor.org/packages/2.6/bioc/vignettes/limma/inst/doc/usersguide.pdf
//rss.acs.unt.edu/Rdoc/library/limma/html/loessfit.html
ps: now almost using limma
please go to
//www.bioconductor.org/packages/release/bioc/vignettes/marray/inst/... 阅读全帖 |
|
e****p
发帖数: 354 | 12 lotkaeuler11 牛！
非常感谢!!! |
|
l**********1
发帖数: 5204 | 13 De rien
NB:
Not stuff Niu but only met them before you just. |
|
l**********1
发帖数: 5204 | 14 Continue:
please refer below figure:
cited from upper floor that pdf E book:
its pp9
The S4 method plot can produce the quality control plots of LumiBatch
object. The quality control plots includes: the density plot (Figure 4), box
plot
(Figure ??), pairwise scatter plot between microarrays (Figure 6) or pair
scatter
plot with smoothing (Figure 7) |
|
l**********1
发帖数: 5204 | 15 BAOZI three got
Merci.
and
For your next ask if you had,
you are welcome always. |
|
l**********1
发帖数: 5204 | 16 R code package:
Earlier
sma package:
FTP//ftp.auckland.ac.nz/pub/software/CRAN/doc/packages/sma.pdf
//www.stat.berkeley.edu/users/sandrine/Docs/Papers/springer02.Rnw
//statwww.epfl.ch/davison/teaching/Microarrays/lab/normalization_eda.html
later
limma package
//bioconductor.org/packages/2.6/bioc/vignettes/limma/inst/doc/usersguide.pdf
//rss.acs.unt.edu/Rdoc/library/limma/html/loessfit.html
ps: now almost using limma
please go to
//www.bioconductor.org/packages/release/bioc/vignettes/marray/inst/... 阅读全帖 |
|
e****p
发帖数: 354 | 17 lotkaeuler11 牛！
非常感谢!!! |
|
l**********1
发帖数: 5204 | 18 De rien
NB:
Not stuff Niu but only met them before you just. |
|
l**********1
发帖数: 5204 | 19 Continue:
please refer below figure:
cited from upper floor that pdf E book:
its pp9
The S4 method plot can produce the quality control plots of LumiBatch
object. The quality control plots includes: the density plot (Figure 4), box
plot
(Figure ??), pairwise scatter plot between microarrays (Figure 6) or pair
scatter
plot with smoothing (Figure 7) |
|
l**********1
发帖数: 5204 | 20 BAOZI three got
Merci.
and
For your next ask if you had,
you are welcome always. |
|
s******s
发帖数: 13035 | 21 "your name" "your title"? |
|
c********d
发帖数: 253 | 22 R中的lowess和loess function可以做的。你用R help查一下怎么用就可以了。
包子plz。 |
|
P*****r
发帖数: 554 | 23 自己写:)
或者改用lowess应该有package |
|
