Mercurial > repos > lecorguille > hca
diff abims_hclustering.r @ 1:36fc0a87d7fb draft default tip
planemo upload
| author | lecorguille |
|---|---|
| date | Fri, 13 Nov 2015 08:43:11 -0500 |
| parents | 2f7381ee5235 |
| children |
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--- a/abims_hclustering.r Tue Jun 30 06:36:09 2015 -0400 +++ b/abims_hclustering.r Fri Nov 13 08:43:11 2015 -0500 @@ -21,10 +21,23 @@ # -- Normalization: logratio -- if (normalization) { - #meandata = apply(data,1,mean, na.rm=T) - #data = log2(data/meandata) - data=t(scale(t(data))) + #meandata = apply(data,1,mean, na.rm=T) + #data = log2(data/meandata) + data=t(scale(t(data))) + + #AMAP: Unable to compute Hierarchical Clustering: missing values in distance matrix + #Erreur dans hcluster(x, method = method, link = link) : + # Missing values in distance Matrix + #Calls: do.call -> <Anonymous> -> hclust2treeview -> hcluster + #Exécution arrêtée + data[is.nan(data)] = 0 } + + #Erreur dans `[.default`(xj, i) : + # les indices négatifs ne peuvent être mélangés qu'à des 0 + #Calls: do.call ... r2cdt -> [ -> [.data.frame -> [ -> [.factor -> NextMethod + #Exécution arrêtée + data = data[!apply(data,1,sum)==0,] # -- hclust / output files for TreeView -- file="hclust.cdt"