refilter_identified_regions: Refilter already identified regions
In theislab/kbranches: K-Branches clustering

Description Usage Arguments Value Examples

View source: R/refilter-identified-regions.R

Refilters the results extracted by identify_regions(). Used only in rare cases where there is some noise remaining in the result of identify_regions().

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refilter_identified_regions(input_dat, sample_labels = NULL,
  smoothing_region = NULL, smoothing_region_thresh = NULL, Dist,
  dotsize1 = 7, dotsize2 = 7)

`input_dat:`	data frame of input data with rows=samles and cols=dimensions.
`sample_labels:`	vector of TRUE/FALSE labels, one for each sample. If sample_labels[i]==TRUE, then sample i is in region of interest (e.g. branching region)
`smoothing_region:`	number of neighbours in to consider for label filtering
`smoothing_region_thresh:`	minimum number of thresholds with same label in the neighbourhood required for the sample to keep it's label
`Dist:`	matrix of sample to sample distances
`dotsize1:`	size of points of class1 (red), used when plotting in 3D
`dotsize2:`	size of points of class2 (green), used when plotting in 3D

a list with elements:

- is_in_region: a logical vector indicating which samples are part of the region (TRUE) and which not (FALSE)
- is_in_region_filtered: same as 'is_in_region', but after S_neib filtering to reduce noise.