Files in rptashkin/facets2n
Cellular Faction and Copy Numbers from Tumor Sequencing
.github/CODEOWNERS
.github/workflows/R-CMD-check.yaml
.github/workflows/test-coverage.yaml
DESCRIPTION
NAMESPACE
R/facets-clustersegs.R
R/facets-cncf.R
R/facets-emcncf.R
R/facets-emcncf2.R
R/facets-findDipLogR.R
R/facets-procreads.R
R/facets-segment.R
R/facets-wrapper.R
R/facets2n-package.R
README.md
inst/ChangeLog
inst/extRfns/readSnpMatrixDT.R
inst/extRfns/readSnpMatrixMSK.R
inst/extRfns/readSnpMatrixMSK.txt
inst/extcode/README.txt
inst/extcode/snp-pileup-wrapper.R
inst/extcode/snp-pileup.cpp
inst/extcode/snp-pileup.h
inst/extdata/Normal_Tumor_PoolNormal.snp_pileup.gz
inst/extdata/donor.csv.gz
inst/extdata/donor.snp_pileup.gz
inst/extdata/reference_normals.loess.txt
inst/extdata/reference_normals.snp_pileup.gz
inst/extdata/stomach.csv.gz
inst/extdata/test_standard_normals.csv.gz
inst/extdata/test_standard_normals.loess.txt
inst/extdata/transplant.csv.gz
inst/extdata/transplant.snp_pileup.gz
man/FindBestNormalParameters.Rd
man/MakeLoessObject.Rd
man/PreProcSnpPileup.Rd
man/emcncf.Rd
man/emcncf2.Rd
man/facets2n-internal.Rd
man/facets2n-package.Rd
man/figures/lifecycle-archived.svg
man/figures/lifecycle-defunct.svg
man/figures/lifecycle-deprecated.svg
man/figures/lifecycle-experimental.svg
man/figures/lifecycle-maturing.svg
man/figures/lifecycle-questioning.svg
man/figures/lifecycle-stable.svg
man/figures/lifecycle-superseded.svg
man/fitcncf.Rd
man/logRlogORspider.Rd
man/plotSample.Rd
man/preProcSample.Rd
man/procSample.Rd
man/procXSnps.Rd
man/readSnpMatrix.Rd
src/cbs2rank.f
src/rshared.c
src/scansnp-random.f
tests/facets-eg.R
tests/pngs/QC_Fit.png
tests/pngs/analysis_with_matched_normal.png
tests/pngs/analysis_with_reference_normals.png
tests/pngs/host_donor_logOR.png
tests/pngs/only_host_logOR.png
vignettes/FACETS.R
vignettes/FACETS.Rnw
vignettes/FACETS.bib
