R help - Sep 2018 - pheatmap query

Hi



I am plotting a pheatmap using following line in a R code

pheatmap(counts_filtered_df,scale="row",cluster_col=FALSE,cluster_row=TRUE,border_color=NA,show_rownames
= T)



I want to extract the row names in the same order as shown in pheatmap and the z
scores for them.



So basically a numeric matrix instead of a figure. Can someone help me how this
can be done



Thanks



Tanya


	[[alternative HTML version deleted]]

Hi Tanya,
Have you looked at the return value of pheatmap?

ret<-pheatmap(counts_filtered_df,scale="row",cluster_col=FALSE,
 cluster_row=TRUE,border_color=NA,show_rownames = TRUE)
str(ret)
names(ret$tree_row)
names(ret$tree_col)

Look at what is in "ret" to see if your numeric matrix is hidden
there.

Jim
On Mon, Sep 3, 2018 at 7:25 PM Singh, Tanya <t.singh at ucl.ac.uk>
wrote:
>
> Hi
>
>
>
> I am plotting a pheatmap using following line in a R code
>
>
pheatmap(counts_filtered_df,scale="row",cluster_col=FALSE,cluster_row=TRUE,border_color=NA,show_rownames
= T)
>
>
>
> I want to extract the row names in the same order as shown in pheatmap and
the z scores for them.
>
>
>
> So basically a numeric matrix instead of a figure. Can someone help me how
this can be done
>
>
>
> Thanks
>
>
>
> Tanya
>
>
>         [[alternative HTML version deleted]]
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.