Hi Cheng, I have a question about the copy number output from DCHIP. After I Analyze by Chromosome and Export SNP Data, I get the same position for the start...
Kari, This is a known bug. Please update to the latest dchip to correct it: Http://biosun1.harvard.edu/~cli/dchip2006.exe Cheng ... From: dchip@yahoogroups.com...
hi cheng, i'm analyzing 100k snp chips for unpaired tumors samples. i am running via open group, declicking load probe data into memory to allow sub array...
Yohan, LOH curve on the right is the average (probability of) LOH across all the samples. I will add in individual LOH curve in the near future. Cheng ... ...
Hi Cheng, I am a new user of Dchip. I currently have the April 2006 version of Dchip. But, if I want to upgrade to the newest version, would I have to...
You just need to download the new .exe over the last one - all previous groups will be there. ... -- David Carter London Regional Genomics Centre Robarts...
Hey, When I "compare samples," the "select by category" button is not highlighted, although I had specified a sample information file in the beginning of the...
Hi - thanks for dchip! Im just getting into it, and am very grateful for it. When I do a cluster analysis, the figure it draws contains a list of the gene...
Hi Cheng, I updated to the latest DCHIP (downloaded 12/1, 11/17 build), and now I can't get the chromosome analysis to work. I verified that the "load probes...
Hi Cheng, The current color scheme for dChip copy number summary plot (showing the sample fraction for copy number abnormal SNPs along the chromosomes) is red...
Jian, Thanks for the suggestion. You can use this updated dchip: Http://biosun1.harvard.edu/~cli/dchip2006.exe And select "Tools/options/Clustering/Red/green...
Cheng, Thanks for making efforts to have alternative color scheme available for the dChip users. I tried your suggestion and indeed was able to make the ...
Hello, I needed to get txt files from chp files to be used in dchip.I understand that I have to view the chp on GCOS and save as text file but I'm have a very...
Hello Afshan, If you are using MAS 5.0, you can open the .chp files within the program. If you are using GCOS, you need to use the DDT tool to correctly import...
Sorry, I meant DTT (Data Transfer Tool). ... -- David Carter London Regional Genomics Centre Robarts Research Institute, Room 4.01 PO Box 5015, 100 Perth Drive...
Hello, I've been playing around with Dchip for weeks now and now I have some data to analyze. I know that many people are supplementing thier use of Dchip with...
Cheng, I have reset the parameters, and still always get the error. The error is a pop-up window saying ("Out of Memory"). No errors appear in the analysis...
Hey Cheng, Has any dchip-generated analysis been confirmed by RT-pcr in the past? Has there been studies/literature that advise on the best possible use of...
Dear all, We start to use 500K for copy number analysis using dChip. We haven't yet ours controls Does some one know if there is some set of controls available...
Hi!! I am doing some copy number analysis on the 100K, I use a 10 SNP smoothing window for tha analysis and when I got the inferred copy number graphic I click...
Hi Cheng, I am running dchip for 500k SNPs. COuld you please help to figure out the following questions? 1. When need we combine the Nsp chip and Sty chip for...
Long, Jirong
jirong.long@...
Dec 12, 2006 9:09 pm
2456
1. I am working with 500K SNP array and have problems with Reference gene file and Cytoband file. It looks like I followed the instruction, but have error...
Hi, Can you please tell me that what criteria Dchip use to call LOH regions.Is there some specific nubmer SNPs should be homozygous to be called LOH. We are...
Hi, I am using 250K Affy StyI chips, and analysis the data using dchip. I have a problem to display the full names of samples on screen, I can only see the...
