AAC
AACT
AAT
AATC
ACA
ACC
ACCs
ACG
ACGs
AddSeqContext
AddTranscript
AGA
AGAT
AGGG
AGT
al
AnnotateDBSVCF
AnnotateIDVCF
AnnotateSBSVCF
Annu
annurev
ATA
ATC
ATCs
ATG
ATGs
ATTG
Benjamini
bioc
biochem
Biochem
bioconductor
Bonferroni
BSgenome
CanonicalizeQUAD
catDBS
catSBS
CATTAT
cbind
CCCAGGGAGGGTCCC
CCDS
CCT
cex
CheckAndFixChrName
chr
chrom
CHROM
chromEnd
chromStart
cisplatin
colibactin
Conaway
cshlp
csv
df
dinucleotide
DBS
DBSs
Dev
doi
DOIs
ebi
Ensembl
et
exome
FindDelMH
Freebayes
GAGG
GATK
gencode
Gencode
GetCustomKmerCount
GetGenomeKmerCounts
GetMutectVAF
GetStrandedKmerCounts
GetStrelkaVAF
GC
GG
GGTA
gff
GFF
github
GL
GRCh
GRCm
gz
HepG
hg
Hochberg
homopolymers
hs
Hsapiens
http
https
Hu
ICAMS’
indel
indels
IndelCatalog
intron
IUPAC
KI
Kilobase
Lieb
macOS
MakeVCFDBSdf
MCF
md
megabase
mer
mers
microhomology
Mmusculus
mucosal
MultiModalMuSig
mutect
Mutect
MutectVCFFilesToCatalog
MutectVCFFilesToCatalogAndPlotToPdf
MutectVCFFilesToZipFile
nd
NN
nrow
nucleotides
opar
PCAWG
pentanucleotide
PlotCatalog
PlotCatalogToPdf
PlotCatID
PlotCatIDtoPdf
PlotTransBiasDist
PlotTransBiasGeneExp
PlotTransBiasGeneExpToPdf
POS
PWM
PyrPenta
PyrTri
ReadAndSplitMutectVCFs
ReadAndSplitStrelkaSBSVCFs
ReadCatalog
README
ReadMutectVCF
ReadMutectVCFs
ReadStrelkaIDVCF
ReadStrelkaIDVCFs
ReadStrelkaSBSVCF
rowname
Rtools
Sancar
sanger
SBS
SBSs
Selby
SignatureAnalyzer
SignatureProfiler
SigProExtractor
SigProfiler
steverozen
StrandToPdf
Strelka
StrelkaIDVCFFilesToCatalog
StrelkaIDVCFFilesToCatalogAndPlotToPdf
StrelkaIDVCFFilesToZipFile
StrelkaSBSVCFFilesToCatalog
StrelkaSBSVCFFilesToCatalogAndPlotToPdf
StrelkaSBSVCFFilesToZipFile
SureSelect
TAC
tck
TCT
TCTA
tetranucleotide
TG
TGA
tgz
th
ThreePlus
ToPdf
TPM
transcriptional
transcriptionally
TransformCatalog
trinucleotide
TSS
TSSToPDF
TT
TTC
TTGA
TTT
UCSC
uk
un
Un
undeleted
unstranded
untranscribed
updateProgress
VAF
VAFs
vcf
vcfs
VCF
VCF's
VCFs
VCFsToDBSCatalogs
VCFsToIDCatalogs
VCFsToSBSCatalogs
wikipedia
XCode
xlabels
ylab
ylim
ymax
