Files in ruqianl/comapr
Crossover analysis and genetic map construction
.Rbuildignore
.gitignore
.gitlab-ci.yml
.travis.yml
DESCRIPTION
LICENSE
LICENSE.md
Meta/hexComapr_crop.png
NAMESPACE
R/bootstrap.R
R/cal-genetic-dist.R
R/comapr.R
R/combineHapState.R
R/count-co.R
R/count-gt.R
R/data.R
R/diagnostic-qc-checks.R
R/find-dup-samples.R
R/get-af-tracks.R
R/get-distorted-markers.R
R/get-mean-dp-track.R
R/get-snp-den-track.R
R/getCellAFTrack.R
R/getCellCORange.R
R/plot-count.R
R/plot-genetic-dist.R
R/plot-gt-freq.R
R/read-col-mm.R
R/read-hap-state.R
R/reformat-geno-mt.R
README.md
data-raw/DATASET.R
data/coCount.rda
data/parents_geno.rda
data/snp_geno.rda
data/snp_geno_gr.rda
data/twoSamples.rda
inst/NEWS.md
inst/extdata/s1_barcodes.txt
inst/extdata/s1_chr1_altCount.mtx
inst/extdata/s1_chr1_snpAnnot.txt
inst/extdata/s1_chr1_totalCount.mtx
inst/extdata/s1_chr1_vi.mtx
inst/extdata/s1_chr1_viSegInfo.txt
inst/extdata/s1_chr2_altCount.mtx
inst/extdata/s1_chr2_snpAnnot.txt
inst/extdata/s1_chr2_totalCount.mtx
inst/extdata/s1_chr2_vi.mtx
inst/extdata/s1_chr2_viSegInfo.txt
inst/extdata/s1_chr3_altCount.mtx
inst/extdata/s1_chr3_snpAnnot.txt
inst/extdata/s1_chr3_totalCount.mtx
inst/extdata/s1_chr3_vi.mtx
inst/extdata/s1_chr3_viSegInfo.txt
inst/extdata/s1_chr4_altCount.mtx
inst/extdata/s1_chr4_snpAnnot.txt
inst/extdata/s1_chr4_totalCount.mtx
inst/extdata/s1_chr4_vi.mtx
inst/extdata/s1_chr4_viSegInfo.txt
inst/extdata/s1_chr5_altCount.mtx
inst/extdata/s1_chr5_snpAnnot.txt
inst/extdata/s1_chr5_totalCount.mtx
inst/extdata/s1_chr5_vi.mtx
inst/extdata/s1_chr5_viSegInfo.txt
inst/extdata/s2_barcodes.txt
inst/extdata/s2_chr1_snpAnnot.txt
inst/extdata/s2_chr1_vi.mtx
inst/extdata/s2_chr1_viSegInfo.txt
inst/extdata/s2_chr2_snpAnnot.txt
inst/extdata/s2_chr2_vi.mtx
inst/extdata/s2_chr2_viSegInfo.txt
inst/extdata/s2_chr3_snpAnnot.txt
inst/extdata/s2_chr3_vi.mtx
inst/extdata/s2_chr3_viSegInfo.txt
inst/extdata/s2_chr4_snpAnnot.txt
inst/extdata/s2_chr4_vi.mtx
inst/extdata/s2_chr4_viSegInfo.txt
inst/extdata/s2_chr5_snpAnnot.txt
inst/extdata/s2_chr5_vi.mtx
inst/extdata/s2_chr5_viSegInfo.txt
man/bootstrapDist.Rd
man/calGeneticDist.Rd
man/coCount.Rd
man/comapr.Rd
man/combineHapState.Rd
man/correctGT.Rd
man/countBinState.Rd
man/countCOs.Rd
man/countGT.Rd
man/dot-change_missing.Rd
man/dot-filterCOsExtra.Rd
man/dot-label_gt.Rd
man/fill_fail.Rd
man/filterGT.Rd
man/findDupSamples.Rd
man/getAFTracks.Rd
man/getCellAFTrack.Rd
man/getCellCORange.Rd
man/getCellDPTrack.Rd
man/getDistortedMarkers.Rd
man/getMeanDPTrack.Rd
man/getSNPDensityTrack.Rd
man/parents_geno.Rd
man/perCellChrQC.Rd
man/perSegChrQC.Rd
man/permuteDist.Rd
man/plotCount.Rd
man/plotGTFreq.Rd
man/plotGeneticDist.Rd
man/plotWholeGenome.Rd
man/readColMM.Rd
man/readHapState.Rd
man/snp_geno.Rd
man/snp_geno_gr.Rd
man/twoSamples.Rd
tests/testthat.R
tests/testthat/test-bootstrap.R
tests/testthat/test-calGeneticDist.R
tests/testthat/test-cleanSNPGenotypes.R
tests/testthat/test-combineHapState.R
tests/testthat/test-corretGT.R
tests/testthat/test-countCOs.R
tests/testthat/test-countGT.R
tests/testthat/test-distoredDetect.R
tests/testthat/test-filterGT.R
tests/testthat/test-findDupSample.R
tests/testthat/test-getCellAFTrack.R
tests/testthat/test-getMeandp.R
tests/testthat/test-plot-count.R
tests/testthat/test-plotDist.R
tests/testthat/test-plotGTFreq.R
tests/testthat/test-plotmissingGT.R
tests/testthat/test-qc-funs.R
tests/testthat/test-read-col-mm.R
tests/testthat/test-readHapState.R
vignettes/getStarted.Rmd
vignettes/ref.bib
vignettes/single-sperm-co-analysis.Rmd
