a345767320ea362a3c159e425679ad5d *CITATION
4a02bb3c78138399e4b5162eece6824f *DESCRIPTION
04ccdbaca6b434a28847abc114122545 *INDEX
cbe6273ea89a919b9cf3b05e7393dcd3 *Meta/Rd.rds
587f90a04d9dbc2155b3a0a0675b1058 *Meta/data.rds
c8440c06be5e093e05779d74c0ffa6b7 *Meta/features.rds
abf2e52a7e03bfcce2a08ccb6acc5085 *Meta/hsearch.rds
161495d0b0c0c838e416ae351dea4615 *Meta/links.rds
29d3c3b3f71c1506568f8e251bf945c2 *Meta/nsInfo.rds
20a5167ef3f1010714e5afa5b8716459 *Meta/package.rds
d64a51df932fdf6f9b97fe8d324617cb *Meta/vignette.rds
b603f7a9626d42caae572262a9d9824a *NAMESPACE
72ecd186ff9413b48ea2929bb815ed34 *NEWS
d6c68f1fe41ced6e98a766a3757313da *R/GenomicInteractions
af6bb461f694c846564737848b32f924 *R/GenomicInteractions.rdb
aa6d9812d8f46e3b629327c10921ccff *R/GenomicInteractions.rdx
398558e5248b1a617c42f5fe6c1ad024 *data/hg19.refseq.transcripts.rda
d976d748baf9338534b53095b4433f0f *data/hic_example_data.rda
e738b2c892fd3a5023e8d0a9cc9dc787 *data/mm9_refseq_promoters.rda
f3be44c2045c0287f3e042d3e80a710b *data/thymus_enhancers.rda
225fe3b2ad316e214b5a54366aa18210 *doc/chiapet_vignette.R
2e84122780fb0724aea18361169e084f *doc/chiapet_vignette.html
d0416f72a012ca734a7171f6838caf66 *doc/chiapet_vignette.rmd
8f4576836a31714d7f8e58a3e2dd1de7 *doc/hic_vignette.R
a27415a65a53e55897ac0c2ee5ec9f52 *doc/hic_vignette.Rmd
52ec4ec6550b2963c013b04a6cdea115 *doc/hic_vignette.html
9597385754aedab651758fc993b6d01e *doc/index.html
8f4732d26550d64a9dee4252097063a1 *extdata/Seitan2013_WT_100kb_interactions.txt
adc8c65e7510394df1e46053c58796db *extdata/k562.rep1.cluster.pet3+.txt
737c74fca5b7b894901f6c3695a6a680 *help/AnIndex
3c5f6ffb860cad4ea850aaff35f2d97e *help/GInteractions-subsetByFeatures-methods.html
e018e7dd8cbc2420de43c42b80c32ff3 *help/GenomicInteractions,ANY,ANY,ANY-method.html
e018e7dd8cbc2420de43c42b80c32ff3 *help/GenomicInteractions,GInteractions,ANY,ANY-method.html
e018e7dd8cbc2420de43c42b80c32ff3 *help/GenomicInteractions,GInteractions,numeric,ANY-method.html
e018e7dd8cbc2420de43c42b80c32ff3 *help/GenomicInteractions,GRanges,GRanges,GenomicRanges_OR_missing-method.html
e018e7dd8cbc2420de43c42b80c32ff3 *help/GenomicInteractions,GRanges,GRanges,numeric-method.html
e018e7dd8cbc2420de43c42b80c32ff3 *help/GenomicInteractions,missing,missing,GenomicRanges_OR_missing-method.html
e018e7dd8cbc2420de43c42b80c32ff3 *help/GenomicInteractions,numeric,numeric,GRanges-method.html
5138306dde79f0aa68ce5f5238406ad7 *help/GenomicInteractions-class.html
3b2189b47098728d9d725319f73d1633 *help/GenomicInteractions-package.html
e018e7dd8cbc2420de43c42b80c32ff3 *help/GenomicInteractions.html
bc233168d8e21deb052696aae755da57 *help/GenomicInteractions.rdb
d80a2d99cd8812c8deff8a90de2d93d1 *help/GenomicInteractions.rdx
d26fd56f1a09d368049632a7cc539adf *help/InteractionHelpers.html
720099fae1fbe0351a83ce7cf67619e5 *help/InteractionTrack-class.html
d6ad09fd5e4dbf9755a69ca50c0d7d9f *help/InteractionTrack.html
d3f9947c9878534dc2e4a00f95e4262e *help/aliases.rds
71caf426eb9ebfcd507015af81a7bb0a *help/anchorOne,GInteractions-method.html
71caf426eb9ebfcd507015af81a7bb0a *help/anchorOne.html
71caf426eb9ebfcd507015af81a7bb0a *help/anchorTwo,GInteractions-method.html
71caf426eb9ebfcd507015af81a7bb0a *help/anchorTwo.html
284dbe417c6755a4f524ac3cd4095fc0 *help/annotateInteractions,GInteractions,list-method.html
284dbe417c6755a4f524ac3cd4095fc0 *help/annotateInteractions.html
cfa480b0ade87de3ae668b6bef3da03f *help/annotateRegions,GInteractions,character,vector-method.html
cfa480b0ade87de3ae668b6bef3da03f *help/annotateRegions.html
71caf426eb9ebfcd507015af81a7bb0a *help/annotationFeatures,GInteractions-method.html
71caf426eb9ebfcd507015af81a7bb0a *help/annotationFeatures.html
3c35c015ec69fd904d4fe28408c87ef8 *help/asBED,GInteractions-method.html
3c35c015ec69fd904d4fe28408c87ef8 *help/asBED-GInteractions-method.html
f18c4fab15337d99ade608b161eee606 *help/availableDisplayPars.html
b37b4cf660b1c4f1a6efb09f8b16cf31 *help/calculateDistances,GInteractions-method.html
b37b4cf660b1c4f1a6efb09f8b16cf31 *help/calculateDistances.html
3e9716e106966144919ad97a289fd362 *help/categoriseInteractions.html
8a9323c3931f8fd39592fe75777f7b5e *help/countsBetweenAnchors,GInteractions,GRanges-method.html
8a9323c3931f8fd39592fe75777f7b5e *help/countsBetweenAnchors-methods.html
8a9323c3931f8fd39592fe75777f7b5e *help/countsBetweenAnchors.html
71caf426eb9ebfcd507015af81a7bb0a *help/description,GInteractions-method.html
59b3b526281116600b91cf5f5fc2e6c1 *help/dot-importHicLib.html
a5894650aeb6addc663fa28c416415f9 *help/dot-importHomer.html
d8b54c1d6d1525f75f09ffc8305b38da *help/dot-processChiapetName.html
ae185ae4a45d1cbdd16c62f88d7dc91a *help/dot-readBam.html
3543da14107d4391fc839a20539435ca *help/dot-readTwoBams.html
0d3d31575b6283e9195f761db7d77af0 *help/dot-validateInput.html
05337a9378d11f832fb652472545841b *help/export.bed12,GInteractions-method.html
05337a9378d11f832fb652472545841b *help/export.bed12.html
0f56a34d74ea9a8112df8cb0727c00df *help/export.bedpe,GInteractions-method.html
0f56a34d74ea9a8112df8cb0727c00df *help/export.bedpe.html
1946190ee27471860b265c63bb2aa02e *help/export.chiasig,GInteractions-method.html
1946190ee27471860b265c63bb2aa02e *help/export.chiasig.html
35c4f764b0c5f980c8879c65935ec25f *help/export.igraph,GInteractions-method.html
35c4f764b0c5f980c8879c65935ec25f *help/export.igraph.html
3b8e60717049349eaa13f3b8d8994b22 *help/get_binom_ligation_threshold.html
b5d0bef9d79b1f182a3db1590194248b *help/get_self_ligation_threshold.html
71caf426eb9ebfcd507015af81a7bb0a *help/getters.html
fb3c6726f0a1f511937819acf35f9052 *help/hg19.refseq.transcripts.html
0c75a310a9e25f5065f76ca7fd5ea56b *help/hic_example_data.html
71caf426eb9ebfcd507015af81a7bb0a *help/interactionCounts,GInteractions-method.html
71caf426eb9ebfcd507015af81a7bb0a *help/interactionCounts.html
d26fd56f1a09d368049632a7cc539adf *help/is.cis,GInteractions-method.html
d26fd56f1a09d368049632a7cc539adf *help/is.cis.html
d26fd56f1a09d368049632a7cc539adf *help/is.dd,GInteractions-method.html
d26fd56f1a09d368049632a7cc539adf *help/is.dd.html
d26fd56f1a09d368049632a7cc539adf *help/is.dt,GInteractions-method.html
d26fd56f1a09d368049632a7cc539adf *help/is.dt.html
d26fd56f1a09d368049632a7cc539adf *help/is.pd,GInteractions-method.html
d26fd56f1a09d368049632a7cc539adf *help/is.pd.html
d26fd56f1a09d368049632a7cc539adf *help/is.pp,GInteractions-method.html
d26fd56f1a09d368049632a7cc539adf *help/is.pp.html
d26fd56f1a09d368049632a7cc539adf *help/is.pt,GInteractions-method.html
d26fd56f1a09d368049632a7cc539adf *help/is.pt.html
d26fd56f1a09d368049632a7cc539adf *help/is.trans,GInteractions-method.html
d26fd56f1a09d368049632a7cc539adf *help/is.trans.html
d26fd56f1a09d368049632a7cc539adf *help/is.tt,GInteractions-method.html
d26fd56f1a09d368049632a7cc539adf *help/is.tt.html
d26fd56f1a09d368049632a7cc539adf *help/isInteractionType,GInteractions-method.html
d26fd56f1a09d368049632a7cc539adf *help/isInteractionType.html
aa2f60c2345fbd4fa6eed09da02fc0b7 *help/makeGenomicInteractionsFromFile.html
429e5423d200db1899494059771de8ee *help/mm9_refseq_promoters.html
71caf426eb9ebfcd507015af81a7bb0a *help/name,GInteractions-method.html
71caf426eb9ebfcd507015af81a7bb0a *help/name.html
396d7ede3c1cd5f6a467350de86fef05 *help/paths.rds
a58cc14e068fe3b59c18e59d118f1704 *help/plotAvgViewpoint.html
af82dd385ac6f98bc50e0de308284bae *help/plotCisTrans.html
fbc04eed125e74e855c8d159c124c694 *help/plotCounts.html
61c0742a1c3e8548329732d07e06a137 *help/plotDists.html
282ecace05b98440ff97f3b8b39c7eb1 *help/plotInteractionAnnotations.html
e5447ca3efabf85c7a63e37d840886a9 *help/plotSummaryStats.html
a8e41aeb3c3dcf8dfe3ed297813158d3 *help/plotViewpoint.html
71e3ab934207833dd9e9eff4d601e789 *help/removeDups.html
03f1278655b5f109ce26260ace0774d2 *help/resetAnnotations,GInteractions-method.html
03f1278655b5f109ce26260ace0774d2 *help/resetAnnotations.html
818f62bc61b14b164d1006471dbb492d *help/sameStrand.html
d6dba71771c9d9ababd13f295e3a56ec *help/setters.html
3c5f6ffb860cad4ea850aaff35f2d97e *help/subsetByFeatures,GInteractions,GRanges,missing-method.html
3c5f6ffb860cad4ea850aaff35f2d97e *help/subsetByFeatures,GInteractions,GRangesList,missing-method.html
3c5f6ffb860cad4ea850aaff35f2d97e *help/subsetByFeatures,GInteractions,character,character-method.html
3c5f6ffb860cad4ea850aaff35f2d97e *help/subsetByFeatures.html
401c57b815bc7b1e2818ea81d4dc2e12 *help/sum,GInteractions-method.html
401c57b815bc7b1e2818ea81d4dc2e12 *help/sum-GInteractions-method.html
e5c28196bc169d0768d45c9f6c2ccd35 *help/summariseByFeaturePairs,GInteractions-method.html
e5c28196bc169d0768d45c9f6c2ccd35 *help/summariseByFeaturePairs.html
30b2c864102c79da1dce065039a0ee36 *help/summariseByFeatures,GInteractions-method.html
30b2c864102c79da1dce065039a0ee36 *help/summariseByFeatures.html
77200b07b6b53385902f7bbdecde02a6 *help/thymus_enh.html
273fa0007f62fbec22e4fd0a0234223e *help/updateObject,GenomicInteractions-method.html
273fa0007f62fbec22e4fd0a0234223e *help/updateObject-GenomicInteractions-method.html
233016243ca0ed947262a96cf66a4d69 *help/viewPoint.html
74b6a0ca3f90fd6224f0fcf516c4b79a *html/00Index.html
837495fc359b1344a178c9b7b3b863f2 *html/GInteractions-subsetByFeatures-methods.html
52561b291eabd639b3ea1af0f5f1008d *html/GenomicInteractions-class.html
371b6283c30ae7cb34d43b4d6c5381f4 *html/GenomicInteractions-package.html
636cdc58891ca9fbbadd17e92c09f182 *html/GenomicInteractions.html
910d7f7d76c61ed6d859ffe5c0d032bf *html/InteractionHelpers.html
4b6e331a92559c49323ea8e109973444 *html/InteractionTrack-class.html
bcd8c1f228e3dbe0d1ef8468583485f8 *html/InteractionTrack.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
37eb41528fdd67b1ec51c335d8f4a39e *html/annotateInteractions.html
cd23240f945f4d17f7a0b9e9d7638f8b *html/annotateRegions.html
8e3ef70eb221568dcf4725d908946fc1 *html/asBED-GInteractions-method.html
0aec5ffcf6a8bd0f0c90a5c2acfbce71 *html/availableDisplayPars.html
33b114b34f85fdea3cfabe9609c4ae4b *html/calculateDistances.html
df77adbb09818c4d3124b8ddaf6e9448 *html/categoriseInteractions.html
f5bbcfc2f631163d5dbb063e3ace8a03 *html/countsBetweenAnchors-methods.html
ebb4522be73223216e68b76b0b326b43 *html/dot-importHicLib.html
b25e6f595fe9c3f6f057a6be35b656ea *html/dot-importHomer.html
08c4adb0684099015b96caa91a23f644 *html/dot-processChiapetName.html
b8f7c7615972df13fc28c2dc25941c5a *html/dot-readBam.html
edc857cbfaf695832e5cc3d994772c17 *html/dot-readTwoBams.html
b56fa25d6ce8c6135bfedd0efeccafd2 *html/dot-validateInput.html
6e18e1c0feb2078ea21a16537b851d35 *html/export.bed12.html
f5e245635a8549e4700d68e84764a806 *html/export.bedpe.html
9a38123e1b5c87549e7e4510bbe9e661 *html/export.chiasig.html
4e28407379dfde06008b07a992115f3f *html/export.igraph.html
188c75c9281ca4a7cdf0bfc62f9f1242 *html/get_binom_ligation_threshold.html
e380fe76a463115d82e6e1cca9a04d38 *html/get_self_ligation_threshold.html
059534ccc63055cc81f07ce98c0be712 *html/getters.html
977ba36ff360f5b8ec79e48f47bc6824 *html/hg19.refseq.transcripts.html
721cf4a41c3469517d3c248101a75c1b *html/hic_example_data.html
6e3bbc60bf2178a2a9502c28978baf93 *html/makeGenomicInteractionsFromFile.html
80baba3208a54927da7bccbebf488978 *html/mm9_refseq_promoters.html
af4ea274feef005fa6f34427fb25c5b1 *html/plotAvgViewpoint.html
88776cc9b92fb46a4bd67c5f052e3fbd *html/plotCisTrans.html
0e5170c385e2630b5710cf7a8223c87c *html/plotCounts.html
d595645b1e075b2d8703a7a471699b37 *html/plotDists.html
201b340fbe42a374835997ef4a55521e *html/plotInteractionAnnotations.html
613fbfb95bf993e750c660b569ad5621 *html/plotSummaryStats.html
bfad34d1d989f1b68468e3a88c073b5b *html/plotViewpoint.html
5f5e6b372090dc260f36181c79577357 *html/removeDups.html
e7e2ec9b882beb613cb39a184a6bbc7d *html/resetAnnotations.html
f7d81b7b5c7d383b00c0e870b1939bbe *html/sameStrand.html
b2684feede988b83c65acad9f3c08048 *html/setters.html
e5b8c86918f908fe23ca515ae799e659 *html/sum-GInteractions-method.html
7ad9f84e631d043b79388e0cb24956ac *html/summariseByFeaturePairs.html
4b65f39f66b8af20b4e293ba1f6dfe19 *html/summariseByFeatures.html
db3fe7f072b4b867a34186a5b180b1bd *html/thymus_enh.html
5d3b4071cb29a115e473344216dc3f10 *html/updateObject-GenomicInteractions-method.html
e03e6d36163d40ac3d5270def3a84a80 *html/viewPoint.html
