I have two large sets of 2D points and need to calculate a distance matrix. I need it to be fast so I used NumPy broadcasting. Of two ways to calculate distance matrix I don't understand why one is...

I have a csv file with a list of co-ordinate positions for over 2000 farms, with the following structure; FarmID | Latidue | Longitude | ------ |---------|-----------| 1 | y1 | x1 | 2 | y2 | x...

Assume the following distance matrix in python... 0 1 2 3 0 0 1 4 8 1 1 0 3 7 2 4 3 0 3 3 8 7 3 0 I would like to convert this distance matrix to a list of pairwise euclidean distances, as ...

I have tried pairing the samples but it costs huge amount of memory as 100 samples leads to 9900 samples which is more costly. What could be the more effective way of computing distance matrix in d...

I would like to know how can I extract the values of the first diagonal from a distance matrix. For example: > mymatrix [,1] [,2] [1,] 1 2 [2,] 3 4 [3,] 6 4 [4,] 8 6 > dist(mymatrix) 1 ...

I found an R package Rlof which uses multithreading to calculate distance matrices and it does a wonderful job. However, the output of the function distmc is a vector rather than a matrix. Applyin...

The bottleneck in my code is the area where I calculate a pairwise distance matrix. Since this is the slowest part by far, I have spent much time in speeding up my code. I have found many speedup...

I am developing my first Cuda application, and I have a kernel with "below-expected throughput", which seems to be the biggest bottleneck at the moment. The task of the kernel is to compute an N b...

This question is sort of a follow-up to how to extract intragroup and intergroup distances from a distance matrix? in R. In that question, they first computed the distance matrix for all points, an...

Algorithm : I'm writing a program with CUDA and the problem is the following: Two matrices A (n * 128) and B (m * 128) I take the first row of A, and I compute the distance between that vector ...

Given the matrix, df <- read.table(text=" X1 X2 X3 X4 X5 1 2 3 2 1 2 3 4 4 3 3 4 4 6 2 4 5 5 5 4 2 3 3 3 6 5 6 2 8 4", header=T) I want to create a distance matrix containing t...