Reorder built-in hclust about complexheatmap HOT 4 CLOSED

That is a nice suggestion! I will support it in the next version. Thanks!

from complexheatmap.

That seems to do the trick (replacing the prior part in Heatmap-class.R, starting line 649):

                } else {
                    if(is.numeric(mat)) {
                        require(gclus)
                        hclust_d = get_dist(submat, distance)
                        c = hclust(hclust_d, method = method)
                        c = gclus::reorder.hclust(c, hclust_d)
                        row_hclust_list[[i]] = c
                        row_order_list[[i]] = row_order_list[[i]][ get_hclust_order(row_hclust_list[[i]]) ]
                    }
                }

from complexheatmap.

Thanks a lot for the suggestion. I used a little bit different solution. Actually there are two ways:

1. if you only want to re-order rows based on a hclust object but don't want to draw the tree, you can set the order through row_order option in Heatmap(). Then you can split the rows in the normal way.

hc = hclust(dist(mat))
Heatmap(mat, cluster_rows = FALSE, row_order = hc$order, split = ...)

1. if you also want to keep the tree, is this case, split can only be set as a single number indicating how many sub-trees that are cut from the big tree.

Heatmap(mat, cluster_rows = hc, split = 2)

So in the following two figures, the second heatmap are splitted into two halves:

This new feature are supported from version 1.2.2.

from complexheatmap.

Thanks, that's excellent and also more flexible than my solution.

from complexheatmap.