User: SAURIN

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SAURIN1.1k
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Posts by SAURIN

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Comment: C: heatmap.2 ..help..how to cluster column ..but not Rows..
... Hi Jason, Sean, Thank you so much for your time and reply. I really appreciate that. Now, it does work. The only explanation I have it...when I fixed my strings for input sample names..I got it working..as Jason showed. have a fantastic weekend, Thanks, Saurin --- On Fri, 4/15/11, Jason Shoemake ...
written 8.3 years ago by SAURIN1.1k
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Comment: C: heatmap.2 ..help..how to cluster column ..but not Rows..
... Hi Jason, Thanks. but, somehow that does not work..! hclust2 <- function(x, method="average") dist2 <- function(x) as.dist(1-cor(t(x), method="pearson")) heatmap.2(FeatureX, distfun=dist2, hclustfun=hclust2); Error in UseMethod("as.dendrogram") : no applicable method for 'as.dendrogram ...
written 8.3 years ago by SAURIN1.1k
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Comment: C: heatmap.2 ..help..how to cluster column ..but not Rows..
... Hi Sean, Thanks for your reply. I tried all those..options in arguments. When I do Rowv = FALSE.. column clustering is not there. thats the reason I got confused..!! heatmap.2(FeatureX,col=bluered,Colv = as.dendrogram(hclust(col.dist, method = "centroid")), dendrogram = "column", scale = "none",k ...
written 8.3 years ago by SAURIN1.1k
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Comment: C: heatmap.2 ..help..how to cluster column ..but not Rows..
... Hi Sean, heatmap.2(FeatureX,col=bluered,Colv = as.dendrogram(hclust(col.dist, method = "centroid")), scale = "none",key = TRUE, dendrogram = "column", density.info = "none",tracecol="black"); This one gives dendrogram on column and key is there as well..the only problem is Rows are being clustere ...
written 8.3 years ago by SAURIN1.1k
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Answer: A: heatmap.2 ..help..how to cluster column ..but not Rows..
... Hi Jason, I tried Rowv = "none" heatmap.2(FeatureX,col=bluered,Colv = as.dendrogram(hclust(col.dist, method = "centroid")), scale = "none",key = TRUE, Rowv = "none", density.info = "none",tracecol="black"); Warning message: In heatmap.2(FeatureX, col = bluered, Colv = as.dendrogram(hclust(col.dis ...
written 8.3 years ago by SAURIN1.1k
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heatmap.2 ..help..how to cluster column ..but not Rows..
... Hi BioC, This must be simple but somehow I can not be able to do it... How can I cluster samples only.. below code is giving me dendrogram on both rows and clumns...! if I do Rowv = FALSE..then I don't see any colors and KEY. Please see this: FeatureX is Matrix with proper rows and colmns. row. ...
written 8.3 years ago by SAURIN1.1k
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Comment: C: Idea that needs feedback
... Hi Radhouane Aniba, What I understand from quick look of this discussion is ..you want to create a methods (R scripts) library with description in terms ..lets say.. R script 1.R input: ouptut: what is used for... how output looks like: modificaions: comments: and so, learners can easily grab t ...
written 8.6 years ago by SAURIN1.1k
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Answer: A: codes
... You can try to see this library of codes. http://proteogenomics.musc.edu/ma/arrayQuest.php?page=home&act=manage& process=Methods_Library_List Saurin --- On Fri, 12/17/10, Peevi Ijkl wrote: > From: Peevi Ijkl > Subject: [BioC] codes > To: bioconductor at stat.math.ethz.ch > ...
written 8.6 years ago by SAURIN1.1k
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Answer: A: pheatmap function is in Which package? - help
... Thank you Iain, I will try that now. Thanks, Saurin --- On Fri, 12/17/10, Iain Gallagher wrote: > From: Iain Gallagher > Subject: Re: pheatmap function is in Which package? - help > To: saurin_jani at yahoo.com > Cc: "bioconductor" > Date: Friday, December 17, 2010, 10:45 AM & ...
written 8.6 years ago by SAURIN1.1k
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consistant Heatmap image based on number of genes and size of samples? - help
... Hi BioC, is there any function/parameter settings in R/BioC which adjusts the Heatmap image based on sample size and number of genes which needs to be plotted on image. The problem is when I generate Heatmap with : bitmap(file = Hfile, type = "png16m", height = MapH, width = MapW, res = 72, units ...
written 8.6 years ago by SAURIN1.1k • updated 8.6 years ago by Iain Gallagher930

Latest awards to SAURIN

Popular Question 8.3 years ago, created a question with more than 1,000 views. For LIMMA error: No residual degrees of freedom
Popular Question 8.3 years ago, created a question with more than 1,000 views. For heatmap.2 ..help..how to cluster column ..but not Rows..
Centurion 8.3 years ago, created 100 posts.

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