Hi Cheng and other Dchippers, DChip keeps crashing on me when I try to run Analysis/Chromosome using the Filtered SNP list file to filter snps. I am using a...
Hi Bin, Such function is not available. You may use printscreen key or copy image to clipboard, and then paste in Paint and select the tree image. Cheng ... ...
Hello all, I'm a beginner user of dCHIP, and I'm currently in Brazil - where, to my knowledege, nobody knows dCHIP exists... I'm comparing the gene expression...
ccolin@...
Dec 7, 2005 2:26 am
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Hello. nice to meet you My name is wang-rim, jung, currently living in south korea This is my first posting email after joining the yahoo dchip group I'd like...
Hello Wang-Rim, You'll find everything for installing dCHIP and analyzing your data in the site: www.dchip.org. There you will be able to download the latest...
When looking at the PM/MM profiles, how does dChip order the probeset names when switching the probesets (I am using the 'home' and 'end' keys to scroll up or...
Hi Carmelle, Yes you can use Excel, but save in text format. One column has X3P probe set names, and another column has matching U133A probe set names. Cheng ...
Hi Christian, When there are only two samples, gene clustering is not too interesting since there will be only two clusters for up and down regulated genes....
Hi all I have some questions about dChip. I performed the same analysis using dChip version from October 2005 and November 2005. I used the same data files...
Thanks for approving my use of dchip and the opportunity to join the group. - Biohype ... Yahoo! Shopping Find Great Deals on Holiday Gifts at Yahoo! Shopping...
Hello everybody, I am planning to do Homozygosity mapping and used Affymetrix 10k SNPs, could you give your valuable suggestion with dCHIP. I greatly...
Hi Jun, These parameters are fine. However the results from the function could be similar to dChip but not exactly the same, due the specific implementation ...
Hi D.C., Probe set names are ordered by their order in the CDF file, which chip names are ordered by their fitted theta (expression values) for this probe set...
Hi Vishwa, You may check dChip parametric linkage analysis or allele sharing analysis to see it helps. http://biosun1.harvard.edu/complab/dchip/linkage.htm ...
Hi, I am a new dchip user, Am trying to get an excel file of my affy experiments with the PM only model and after loading the cel file when i try to export it...
Hi sushma_m_t, Have you tried to to "Analysis/Normalize" and "Analysis/Model based..." before exporting? You may redo these steps and attach dchip output ...
Hi Adrian, You may find the group_name.ini file in the same directory as dchip2005.exe. You may copy it from the octobor directory to the november directory...
Hi, Cheng. What is the STDV in the CEL file? Is it the the standard deviation of the 25 pixels for a probe? Do you used that value in dChip? Thank you very...
Hi luxinwyzh2002, You are right about STDV. However dChip does not use these values, but rely on a model to assess probe signal variations. Cheng ... From:...
Hi Nik, Probably not. But I'm not sure. The reason could be that the STDV values are small compared to the probe variations across probes and arrays. Cheng ......
Hi Everyone, How do I order the samples in a specific way in the heat map? ie. I am not clustering the samples, but want to place them in a certain order...
Hi! I heard that there is a way to import SNP genoytpe data from the Sequenom MassARRAY database into the dCHip software. Are there any instructions available...
Hi Cheng, Thanks very much for the added function. It has greatly simplified our ability to locate copy-neutral LOH events. Much appreciated. Another...
Hi Cheng, I am using version 12-11-2005 version of dCHIP to analyze some affymetrix HindIII 50K data to derive the copy number calls for each SNP. The copy...
Hi DZ, You may use "Tools/Array list file" to order samples, and uncheck "Analysis/Clustering/cluster samples". Cheng ... From: dchip@yahoogroups.com...
