Files in aksenia/SeeCiTe
Assess the quality of and visualize array CNV callset for trios
.DS_Store
.Rbuildignore
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/.DS_Store
R/analyzeSignalConcordance.R
R/analyzeSignalConcordanceSingle.R
R/calcShift.R
R/classifyBAF.R
R/classifySingles.R
R/classifyTrios.R
R/clusterBAF.R
R/decodeHMMstates.R
R/extractInheritance.R
R/makePythonCommands.R
R/mapTriostate.R
R/plotCohort.R
R/plotRawTrio.R
R/plotSingle.R
R/prepareClass.R
R/prepareClassSingle.R
R/readInputs.R
R/readPennTrioFormat.R
R/readPennTrioOriginal.R
R/readSingle.R
R/runAnalyzeSignal.R
R/runExtractInheritance.R
R/stabilizeDistr.R
R/statusFromTriostate.R
R/testLRRDistributions.R
R/testLRRDistributionsSingle.R
R/utils-pipe.R
R/writeSeecite.R
README.md
SeeCiTe.Rproj
inst/bash/merge.sh
inst/bash/pool_snp_data.sh
inst/extdata/SNGLE.signal_flanks_30.txt
inst/extdata/affy6ceu.merged.filtered.triocnv
inst/extdata/affy6ceu.merged.filtered_annot.triocnv
inst/extdata/affy6ceu.merged.filtered_annot_offspring.triocnv
inst/extdata/affy6ceu.merged.filtered_merge.log
inst/extdata/affy6ceu.merged.filtered_unmaskedstatus.triocnv
inst/extdata/affy6ceu.original.triocnv
inst/extdata/affy6ceu.probecoord.txt
inst/extdata/affy6ceu.qcsum
inst/extdata/affy6ceu.snp_cnv.log
inst/extdata/affy6ceu.snp_flank.txt
inst/extdata/affy6ceu_triolist.tab
inst/extdata/samples_map.txt
inst/python/.DS_Store
inst/python/__pycache__/datastructutils.cpython-37.pyc
inst/python/__pycache__/readwritefiles.cpython-37.pyc
inst/python/datastructutils.py
inst/python/extract_snp_cnv.py
inst/python/extract_snp_flanks.py
inst/python/extract_snp_single.py
man/.DS_Store
man/analyzeSignalConcordance.Rd
man/analyzeSignalConcordanceSingle.Rd
man/calcShift.Rd
man/classifyBAF.Rd
man/classifySingles.Rd
man/classifyTrios.Rd
man/clusterBAF.Rd
man/decodeHMMstates.Rd
man/extractInheritance.Rd
man/figures/step-iii-single-1.png
man/figures/step-v-indiv-plot-1.png
man/makePythonCommands.Rd
man/mapTriostate.Rd
man/pipe.Rd
man/plotCohort.Rd
man/plotRawTrio.Rd
man/plotSingle.Rd
man/prepareClass.Rd
man/prepareClassSingle.Rd
man/readInputs.Rd
man/readPennTrioFormat.Rd
man/readPennTrioOriginal.Rd
man/readSingle.Rd
man/runAnalyzeSignal.Rd
man/runExtractInheritance.Rd
man/stabilizeDistr.Rd
man/statusFromTriostate.Rd
man/testLRRDistributions.Rd
man/testLRRDistributionsSingle.Rd
man/writeSeecite.Rd
vignettes/.gitignore
vignettes/README.Rmd
vignettes/introduction.Rmd
