hi! All: I wonder if I have a set of affy results, but they belongs to different categories, should I using dCHIP to put them in different groups? then apply...
Hi,all, I want to export the filtered gene lists, but I cannot find the "Tools/Export data/Expression value" in the software as the manual said. Is it the...
Dear All: I have a data set that contains about 100 chips, about 7 different categories since the sample from different tissue. I made data file list and...
Hao, ... the first step? Yes. The DCP files contain unnormalized and normalized probe values, as well as model-based expression values. ... group that contains...
hi! Cheng: Thanks for your reply, I am confused about the sequence I should apply the analysis, my understanding: 1. make different data location files for...
Hao, If you decide to analyze all tissues together, you can put them in one directory and open them in a single group. Following the sequence in manual or...
Hi, I'm using dChip 1.3 to analyze Affy 10K SNP chips for LOH. I'm having trouble getting my LOH display to allow me to view the gene names and SNP IDs. These...
Sean, You may use Control + Right key or Right key to adjust the width. 11K genome info file is based on Affy annotation files, which also has African American...
Dear All: I hate to ask it here but I can't find an answer to my question even after reading the dCHIP manual. The situation is like this, I have 150 chip for...
We are trying to use Dchip to analyze the new Affy chip (MG0430 2.0), and I am getting the error message "number of probe sets exceeds limit". Does the most...
Please see this link for the latest dChip: http://biosun1.harvard.edu/~cli/dchip.exe cheng ... From: Victoria Perreau [mailto:vperreau@...] Sent: Thursday,...
Hao, ... try to combine them together for ArrayTools analysis? Yes. ... them into one group and do analysis after what I already did? You can first combine all...
Hi, Cheng Could you explain the first question a little bit more. I previously thought when we did normailization and MEBI with d-Chip, no further need for ...
Hi, I am totally new to this field and I am trying to analyze some affy data. But I don't know how to open file from dchip software. I have read the manual...
Arshad, You can let me know the error message at “Open group” so I can check. For latest CEL files, you need to use this Affy CEL file converting tool ...
Hello, When I use the genome view to visualize the genes, blue boxes indicate the gene stretches. Actually, I do not understand what means stretch. Does it...
Hello. Can anyone tell me if there is a way to output the coefficient of determination values from the pairwise plots generated by the PAIRS command? Is there...
Colin, Most R commands can be used in this view, so you can look up the R manual for it: http://www.r-project.org/ If you start R and type in “?cov”, it...
Thanks for quick response, I'm sorry for the followup, I'm still new to the R language. I tried the commands as described in the R manual for my data space ...
Colin, You may try print(cor(GlobinRdxn, y=NULL, use="complete")) dChip R view has limited interface and requires print() function to print the output. a...
Yu, Yes it's true. If you mainly copy images into Word, you can select "Copy to clipboard in EMF format", which keeps the economic size of figures. Cheng ... ...
Lee, ... according to their categories. I normalized and did MEBI on them separately, then exported the expression value -- without any filtering, to different...
Hi. Cheng, I have 18 Affy chips for 3 treatments, 6 chips in each treatment. The correlation within treatment group is high, R values are about 0.96- 0.98 and...
Hi all, I'm trying to read in raw HU133A chip data (I have both the .cel and .dat files) with dChip 1.3 (I downloaded it on 3/2/04). I tried opening the group...
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