Dear Cheng: Thanks I am sorry that I did not send my question completely: Do you think it is possible to open the .cel files of exon arrays as text file? Marry...
Hi, it's been one month after i use dchip last time. Today when i ran dchip again, it shows that "dchip MFC Application has encountered a problem and needs to...
Hi, when i do clustering, i got the disordered sample order in the clustering tree. can i change the order of those samples, which will be easier for me to...
Hi Linda, You can try the following: http://biosun1.harvard.edu/complab/dchip/install.htm#troubleshooting in particular, Click the "Tools/Options/Reset...
Hi Linda, You can use “Tools/Array list file” to order samples. Then at clustering, specify not to cluster samples. Cheng ... From: dchip@yahoogroups.com...
Hi Bin, Thanks for the question. dChip doesn’t check for saturated probes. But these probes may be identified as image spikes and treated as single outliers...
Hi Cheng I am trying to do an unsupervised clustering among human and mouse data sets. I would like to start with a list of genes that vary in abundance by at...
Hello! I have just one more quick question, although this one may be silly. I ran comparisons on the same data using dchip and using the affy/limma packages...
Hi Cheng I'm not quite sure what "Tools/Percentile filtering" does exactly? I tried to look it up in the manual and the only section mentioning it is in...
Hi, It happens usually in microarray analysis. Different packages, different models tell you different stories, that's life. That's why we need biologists to...
Hi Dr. Li, Thank you very much for replying my questions. Your answers are very helpful. I have to bother you with another question. I used two different...
Hi, Using the new dchip version i am getting copy no values in decimals like 2.2 or 1.8. While i want my inferred copy no results in rounded figure like 1,2 or...
Hi, I tried to use dchip (dchip2006_02_VC6) to load some external data, and always got a window saying "dchip MFC Application has encountered a problem and...
Hi Yi, It may be that the external data file is not saved in txt format? You can open it in Excel and resave in tab delimited text format. If not working,...
Hi Cheng I would like to combine human datasets from the U133A chip and mouse datasets from the MOE430_2 chip. I'm wondering if I need to normalize the 2 sets...
I want to merge the signal intensity of invidual probes across multiple CEL files into a single TXT file (either before or after normalization). Does dchip or...
Hi, Dr Chen, I use dichip 2006. I still can't get Summary Plot for my ACGH data. Could you tell me how to do this? Thanks lot. Yonghui RE: [dChip] Summary Plot...
Hi: When I try to view the human exon unnormalized or normalized arrays dChip freezes up and only shows a white screen, as a matter of fact the information on...
Rosa, This is probably due to PC memory limit when you look at many array images. I don’t have a solution for now. Cheng ... From: dchip@yahoogroups.com...
hi, I have a basic question about the Median probe intensity in dchip. In normalization, is the Median probe intensity reported (usually in the format: "median...
