histogram_dist: Compute the pairwise Jensen-Shannon distance between samples...
In milaboratory/mirutil:

Computes pairwise set of Jensen-Shannon distance provided a set of histograms. Several histogram groups can be provided having different 'type' value. If specified, will also only compare samples with the same antigen receptor chain

1	histogram_dist(data, cores, add.pseudocounts, filter.by.chain)

`data`	a set of histograms, should contain 'sample.id', statistic type - 'type', bin identifier - 'variable' and frequency/count - 'value' columns
`cores`	number of cores for parallelization
`add.pseudocounts`	if True, will add pseudocounts and re-normalize histograms, in this case 'value' should contain count, not frequency
`filter.by.chain`	if True, will only compare samples with the same chain, requires additional 'chain' column in 'data'

a pairwise distance table, containing sample ids in 'sample.id.1' and 'sample.id.2' columns, statistic type in 'type' column and distance in 'd' column; if 'filter.by.chain' is set to true will also include 'chain' column

milaboratory/mirutil documentation built on May 20, 2019, 1:24 p.m.