prob_dist {bigutilsr} R Documentation

## Probabilistic set distance

### Description

Probabilistic set distance

### Usage

```prob_dist(U, kNN = 5, robMaha = FALSE, ncores = 1)
```

### Arguments

 `U` A matrix, from which to detect outliers (rows). E.g. PC scores. `kNN` Number of nearest neighbors to use. Default is `5`. `robMaha` Whether to use a robust Mahalanobis distance instead of the normal euclidean distance? Default is `FALSE`, meaning using euclidean. `ncores` Number of cores to use. Default is `1`.

### References

Kriegel, Hans-Peter, et al. "LoOP: local outlier probabilities." Proceedings of the 18th ACM conference on Information and knowledge management. ACM, 2009.

`LOF()`

### Examples

```X <- readRDS(system.file("testdata", "three-pops.rds", package = "bigutilsr"))
svd <- svds(scale(X), k = 10)
U <- svd\$u

test <- prob_dist(U)
plof <- test\$dist.self / test\$dist.nn
plof_ish <- test\$dist.self / sqrt(test\$dist.nn)
plot(U[, 1:2], col = (plof_ish > tukey_mc_up(plof_ish)) + 1, pch = 20)
plot(U[, 3:4], col = (plof_ish > tukey_mc_up(plof_ish)) + 1, pch = 20)
plot(U[, 5:6], col = (plof_ish > tukey_mc_up(plof_ish)) + 1, pch = 20)

```

[Package bigutilsr version 0.3.4 Index]