Description Usage Arguments Value Author(s) See Also
View source: R/gatherEXPANDSoutput.R
Reads EXPANDS output files from user-specified input directory.
1 | gatherEXPANDSoutput(outDirEXPANDS,regex="")
|
outDirEXPANDS |
Absolute path to input directory in which EXPANDS results are stored, as generated by |
regex |
Pattern that path has to match in order to be read. |
Two-level nested list. The outer level contains one entry per each output of runExPANdS
. Each entry constitutes an inner list with fields:
snv - The assignment of each SNV to a subpopulation.
cbs - The copy number of each genomic segment in each subpopulation.
spstats - Matrix of predicted subpopulations.
tree - The inferred phylogenetic relationships between subpopulations as an object of class "phylo4" (library phylobase).
treeApe - The inferred phylogenetic relationships between subpopulations as an object of class "phylo" (library ape).
Noemi Andor
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