Nothing
author: Kevin R. Coombes date: 12 October 2018 title: Auxiliary Material for CloneFinfer
This directory contains a combination of material that either (1) constructs data sets that are part of the package or (2) performs some of the analyses described in our manuscript.
chlens.txt
is a simple table holding the lengths In base pairs)
of human chromosomes. It is based on build [UNKNOWN} and was
initialy obtained from [UNKNOWN].makeChlens.R
is a script that reads the previous file, converts
it to a useful form, and saves it in the sysdata.rda
file so it
can be used by the package. In particular, it is used by functions
that simulate Tumor
objects to create realistic segmentation
data.makeTestExamples.R
is a script that simulates copy number and
mutation data used for regression testing of the algorithms during
package development. simgen.R
is the script that created the original simulated data
sets used in our paper to compare the CloneSeeker algorithm to other
algorithms intended to detect clones.running.R
analyzes all th simulated data.asswssing.R
compares the infered results feomthe the algorithms
to the true properties of the simulated adta.clinical.R
applies th CloneSeeker alorithm to CLL data.cnv_survival.R
tsts the associations of subclones with clinical
variables in CLL.`figures.R
generates the figures in the manuscript.Any scripts or data that you put into this service are public.
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.