Create the matrix an SBS catalog for *one* sample from an in-memory VCF.
CreateOneColSBSMatrix(vcf, trans.ranges = NULL, sample.id = "count")
An in-memory VCF file annotated by the AddSeqContext and AddTranscript functions. It must *not* contain indels and must *not* contain DBS (double base substitutions), or triplet base substitutions etc., even if encoded as neighboring SBS.
A data.table
which contains
transcript range and strand information. Please refer to
TranscriptRanges
for more details.
Usually the sample id, but defaults to "count".
A list of three 1-column matrices with the names
catSBS96
, catSBS192
, catSBS1536
.
If trans.ranges is NULL, catSBS192
is not generated.
Do not rely on the order of elements in the list.