Comments (2)
jokergoo
commented on May 22, 2024
So sorry that I almost forgot to reply you. The amap package looks great and I think I will integrate it after I fully test it. Thanks for telling me this!
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jokergoo
commented on May 22, 2024
I am trying amap package these days. I found actually hcluster() does not improve the performance too much. And it seems it is even slower than hclust(dist(..)).
> mat = matrix(rnorm(10000), nrow = 1000)
> microbenchmark(amap::hcluster(mat))
Unit: milliseconds
expr min lq mean median uq max neval
amap::hcluster(mat) 286.6541 429.1059 443.3019 462.3735 464.4711 470.595 100
> microbenchmark(hclust(dist(mat)))
Unit: milliseconds
expr min lq mean median uq max neval
hclust(dist(mat)) 135.1492 136.8577 142.8476 137.3423 139.3044 601.5945 100
> microbenchmark(amap::hcluster(mat, nbproc = 4))
Unit: milliseconds
expr min lq mean median uq
amap::hcluster(mat, nbproc = 4) 218.4079 298.1017 294.9429 299.4211 301.2363
max neval
304.9114 100
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