compute_rearr_stat_mds: Performs a multidimensional scaling placing samples in a 2D...

Description Usage Arguments Value

View source: R/batch.R

Description

Produces a data frame with 2D coordinates for each sample computed for segment usage, insert size and segment trimming size statistics. Note that this routine will produce separate placements for each antigen receptor chain present in dataset

Usage

1
compute_rearr_stat_mds(dists_bundle, cores = 2)

Arguments

dists_bundle

a set of distances produced by 'compute_rearr_stat_dist' function

cores

number of cores for parallelization

value.types

specifies whether to use weighted histograms - 'reads' or to count each clonotype once - 'clonotypes'; can specify both

add.pseudocounts

if true will re-compute histograms by adding a pseudocount of 1 to each histogram, including missing bins, and re-normalize them to new total

Value

a data frame holding sample coordinates for each rearrangement statistic and chain


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