fef160b691cc25b3b54819dd473ad445 *DESCRIPTION
1ebbd3e34237af26da5dc08a4e440464 *LICENSE
f1f6f4e04f27b6ac6eff60cbc91ed1a2 *NAMESPACE
188521dc51287dda57889dd35ef026d4 *NEWS
ce68d98a53407d890efd99d2dc344efd *R/BreakpointGRanges.R
774f067345d9cab3dd4bdc1a1295d5f9 *R/StructuralVariantAnnotation.R
9ff07e7b613dde97b3938c55d128bfdb *R/eventDetection.R
32bb095c577da8057de76aa2d4f46d74 *R/extensions-VCF.R
f51e2ec219f7daabf949f0dd89091d5c *R/plotting.R
2d74e43f4dba10d91e64981879a3e3a6 *R/unittesthelper.R
ea6f81837385eb209f50fcb151bff9bb *R/util.R
b50296734ee987a3859da48a549d7091 *R/vcfConstants.R
a8294ded070e831ae265846fb671a8d1 *README.md
413bc60e333eafb28cbe9af37f75a67c *build/vignette.rds
f0f83c07ff35ff8cce00415bacf5068d *inst/doc/vignettes.R
d052771ccaa69c725f0ac2e8e12fad94 *inst/doc/vignettes.Rmd
2d3b464dcf70978e295b96812ce1b38c *inst/doc/vignettes.html
130c801d91d59d955b2cc6fce539fb0a *inst/extdata/COLO829.10X.longranger.largeSVs.vcf
3a97a9dbbff3f568492b43eb2f46e8df *inst/extdata/COLO829.nanopore.sniffles.vcf
12ee44ba494bc06baa7369469700f7c8 *inst/extdata/COLO829T.purple.sv.ann.vcf.gz
0330106026276e1a02cc33dbbe1c48b5 *inst/extdata/MT.vcf
683caf164bb74e29552f0177e876add2 *inst/extdata/breakdancer-1.4.5.vcf
704f769eb5e6e45a54d84586cb082cc9 *inst/extdata/breakend.vcf
c3e6c42ecf19c88a0bbc140e20d2902e *inst/extdata/colo829_nanoSV_truth_overlap.vcf
ee3fc24414b776d8eb395d0d6d59c31e *inst/extdata/colo829_somatic_gridss.vcf.gz
03920026bbe3539eeaffc3b51dd05b53 *inst/extdata/colo829_somatic_manta.vcf
df504e12f2d36c2ca15beeada61fb12d *inst/extdata/colo829_somatic_novobreak.vcf
2ab83f00d360b12f5cece00c82e5c0b0 *inst/extdata/crest.vcf
c972e2f7fde3e39dcafa159e96732617 *inst/extdata/delly-0.6.8.vcf
351814da6dd730c526944416ce048706 *inst/extdata/gridss-missingPartner.vcf
4927fa10b4842cfa4ba38c9d5fc7d8c8 *inst/extdata/gridss-na12878.vcf
cc82ed7e26d2d0490714f9c52882a605 *inst/extdata/gridss.bedpe
5e5ae0f5c15eef2943d75b9168031c47 *inst/extdata/gridss.vcf
8cd93102afc733e1f81cd323eacf21c5 *inst/extdata/manta-0.29.6.vcf
1cf2f3eda533b5cd761a71a78cac7ad7 *inst/extdata/manta-1.1.1.vcf
cb53d99797872f13ba066e3551a6d3d2 *inst/extdata/multipleAltSVs.vcf
7b54dafc7a0b36ddaa85c861e745b8f9 *inst/extdata/na12878_chr22_Sudmunt2015.vcf
ebbaf305e07754a431a7200b122a8561 *inst/extdata/na12878_chr22_crest.vcf
63206a566ee14bcb7fedd85e214a9f10 *inst/extdata/na12878_chr22_hydra.vcf
489550bafad9c87b6441721b379966a6 *inst/extdata/pindel-0.2.5b6.vcf
c8ebd21bc84ce483adfb841c82e77196 *inst/extdata/representations.vcf
5b5c58c132267ad80662b8b7ef918782 *inst/extdata/simple.vcf
a489a6898e1a6c617b09baa2f0fbc037 *inst/extdata/tigra-0.3.7.vcf
1d65994890ea73aa848d288774ab10db *inst/extdata/truthset_somaticSVs_COLO829.vcf
a0a6d82bbcd08187186af68b4c339819 *inst/extdata/unnamed.bedpe
27f53f9124a138ed7da6181719f34881 *inst/extdata/vcf4.2.example.sv.vcf
ae64f8ee8e3b4e979bef8d9687adf75c *man/StructuralVariantAnnotation.Rd
a82c1899e67c993808a160e50ab5c80d *man/align_breakpoints.Rd
db13c13679efe298a2c053f9aa181a53 *man/breakendRanges.Rd
2ebbee7c655276e42149c2338d0f08d9 *man/breakpointGRangesToVCF.Rd
77dad6790c97c1650a5f7844c4878770 *man/breakpointRanges.Rd
7664e9a939a54bb7d489604751af1084 *man/breakpointgr2bedpe.Rd
36ab76c5c9ca20e624912b95a5b3b9be *man/calculateReferenceHomology.Rd
e97d821d2dbea6a8d43b0df3cb03a498 *man/countBreakpointOverlaps.Rd
bd7f04f7516449ba21b3c982ab2648f0 *man/elementExtract.Rd
87770257ed590795eebfbd694c003cd6 *man/extractBreakpointSequence.Rd
2511230c5e40b1c8246a00cc9ad04df6 *man/extractReferenceSequence.Rd
2a271d20b4ae5a6a3effee5bc4aeaa7a *man/findBreakpointOverlaps.Rd
d93ff6328012a68ec17fa206f06a70f6 *man/findInsDupOverlaps.Rd
b581ec6c55b4d09d8c93e0c570a0b5c1 *man/findTransitiveCalls.Rd
a6c8dc162eec7267ca3128dfd9f21725 *man/hasPartner.Rd
10e1ae8081eb5a61455cb02c34c32a63 *man/isStructural.Rd
3a1c03598ec01ac9e28a05329061c656 *man/isSymbolic.Rd
e8b73de709755edb48f5fef8d8093c67 *man/numtDetect.Rd
193746e4f0aa21b1ffde0825522722c3 *man/pairs2breakpointgr.Rd
b4c699e6e69be3a962b6de15799099d5 *man/partner.Rd
fbb7b6405117336c35a6c1f069c0fbe1 *man/rtDetect.Rd
563d00b7e15e8adcd9cda7f59e425fa5 *man/simpleEventLength.Rd
2f43cc932acab2440af164e10592a791 *man/simpleEventType.Rd
8aa2127ed027819ca121fdfc2ffbf4eb *tests/testthat.R
502ef4c99178929db95bc8171bf17539 *tests/testthat/test-BreakpointGRanges.R
209ac0bd5250e98ab99e3cb9451890da *tests/testthat/test-extensions-VCF.R
bb61314ac735c321420d61e194826166 *tests/testthat/test-plotting.R
07dd4bfef5afe9fbb5f340c08d086663 *tests/testthat/test-util.R
d052771ccaa69c725f0ac2e8e12fad94 *vignettes/vignettes.Rmd
