7dfe7cdba169ceb5004c35c1700060a7 *DESCRIPTION
b0cd808fda6e1b0d5a1b5c092546e2d0 *LICENSE
16b475cdcc42e823b491e2fcc08de3d9 *NAMESPACE
080f51a12f0a7dd20a2a6a2389489b0e *NEWS.md
df6cc46bc7fae1a55b713f3d5065b35a *R/UPDhmm-package.R
8c1079e41e14a4849b76a71d47e04884 *R/applyViterbi.R
73f57674fea3673db50085700838496d *R/blocksVcf.R
16986dd8c2d7ca0465a9914f2f98b969 *R/calculateEvents.R
5acaf94189d9f495ac778d6bddd4195a *R/collapseEvents.R
60acb0205d2fd1e6fd34f013337d2380 *R/data.R
5046f492a934da3e5144a167fc104151 *R/identifyRecurrentRegions.R
2b0c03913274dbb9ad1c7a62861122f0 *R/markRecurrentRegions.R
92c0155cb871e7b89fa22219a8912036 *R/processChromosome.R
120363cae9348dec41b4ea3981ee3704 *R/vcfCheck.R
d65a01340a841be41ab24b32477ec0fe *README.md
f40b2b4d1208042c3e6587a68affda61 *build/vignette.rds
4b0748939e433b281b442c26178227ec *data/hmm.rda
1444bee349adbbf6ef14693a8a56e1f8 *inst/doc/UPDhmm.R
aeb0e766d604e14fecd4cd627033eb0b *inst/doc/UPDhmm.Rmd
57b1c9b3d7e64898cf94b40a56212ac7 *inst/doc/UPDhmm.html
a547c0f5213329b1b9bb505b0fd62f06 *inst/doc/long-reads-processing.R
dc1e1f70defe728e45ae8d5b9dfe2234 *inst/doc/long-reads-processing.Rmd
23ed7ac31cd7f8bd8aacf3ef845ec1c7 *inst/doc/long-reads-processing.html
a547c0f5213329b1b9bb505b0fd62f06 *inst/doc/preprocessing.R
c885d1033579f62a71bfb4158dc1dc80 *inst/doc/preprocessing.Rmd
96ee0290fca4b25224d60d6fde62a6ba *inst/doc/preprocessing.html
56130c12f76862f6595a9fea2f650f1a *inst/extdata/SFARI.bed
a65faf60f1a582739a39a4d9adf41559 *inst/extdata/sample1.vcf.gz
d567eb45a541e997bfe2276a236f11f9 *inst/extdata/sample2.vcf.gz
d567eb45a541e997bfe2276a236f11f9 *inst/extdata/test.vcf.gz
a65faf60f1a582739a39a4d9adf41559 *inst/extdata/test_het_mat.vcf.gz
2b0958b095c603692c3310325bb26a2d *inst/scripts/cnps.bed
6ee6379e335c1a7e4b87de35b4c5cc0f *inst/scripts/extractTrioNA19675.sh
42a4748634a797bbc5912626007363ba *inst/scripts/getFilesExdata.sh
ae51d30ddbdd7506848a992e8eb62110 *inst/scripts/simulation3q.R
aa387557504a562f1997dab8dd792054 *man/UPDhmm-package.Rd
f4207e296669b17dfde9a951f7da74ab *man/applyViterbi.Rd
de02654cd7b3dd6c638ba04594339372 *man/blocksVcf.Rd
069c03ab8b7205deded9f0c108d4667d *man/calculateEvents.Rd
c81802534b51d0debae4f19a8222780a *man/collapseEvents.Rd
94ab53e07e8c124d89cd316067340c14 *man/computeTrioTotals.Rd
fa00cdb300b7a9006f3dd369dcf94690 *man/hmm.Rd
7eacb3829da7ae189958875bd9151f58 *man/identifyRecurrentRegions.Rd
10257db3f186b58aed5926d16a1dd687 *man/markRecurrentRegions.Rd
1d216f075ec0243ef92a8eb419c03a69 *man/processChromosome.Rd
39e785c86a9a8da31b5919a472f738c1 *man/vcfCheck.Rd
6f35e9726d4801c10d3ec636e537e08b *tests/testthat.R
45f9124ab94f491b9d92ebbd71a84611 *tests/testthat/test-applyViterbi.R
2b77bdb0f85b1e7da0a106d6b7b09d4e *tests/testthat/test-blocksVcf.R
81bfd45b8b7171bdb2f4b32eddce8930 *tests/testthat/test-calculateEvents.R
ebf3d6cb051633bf6c292fd12ed49da0 *tests/testthat/test-collapseEvents.R
e24a0288bb8944468cc511bf74cccff8 *tests/testthat/test-identifyRecurrentRegions.R
f15b1a9f7b56553d3637b576ec42afb6 *tests/testthat/test-markRecurrentRegions.R
f25d83e0403681fb0615b6d7dca138fb *tests/testthat/test-processChromosome.R
01ee57d013d989622ca07dbefc5a6f32 *tests/testthat/test-vcfCheck.R
aeb0e766d604e14fecd4cd627033eb0b *vignettes/UPDhmm.Rmd
dc1e1f70defe728e45ae8d5b9dfe2234 *vignettes/long-reads-processing.Rmd
c885d1033579f62a71bfb4158dc1dc80 *vignettes/preprocessing.Rmd
