bbabdbe0c26a184cb4b7e8bbd0727278 *DESCRIPTION
1b45c26aae1f931379e5d33e7480f82c *INDEX
d8285adefdf27588dffc10e0fc6848ed *Meta/Rd.rds
6a5b59d10d532a52046fa6367c15146e *Meta/data.rds
e00065855163c282e8adab2a116bf019 *Meta/features.rds
b02cd6af91435001c368741f43371669 *Meta/hsearch.rds
66b4fd4af882fda294aeac04b2a35521 *Meta/links.rds
7d15f1598f503fb24945884f0b585974 *Meta/nsInfo.rds
3665600cad3471660bf39a170a7e6262 *Meta/package.rds
9fbdb50ddba6379174915eea82f3ff05 *Meta/vignette.rds
8266d81f797b7c152fca7d2d0b62780f *NAMESPACE
6e413c2bcd6660a83f0ffad53dcd0d54 *NEWS
ebf0fc819595d631b8bf280c4b049940 *R/BaalChIP
41120150d9e728789a6395d4ec0b2ffe *R/BaalChIP.rdb
8f22fc692e4b525978c8d592018d273b *R/BaalChIP.rdx
c9ef869af9910ae73eedfe102ae07610 *data/Rdata.rdb
3b5920ed750ad9bb92c18f568d096697 *data/Rdata.rds
70a63d3fb3e8fe3227ce442bfcc4e96f *data/Rdata.rdx
238836dcba18728bd32c69aa762eca44 *data/datalist
7972ed12177a5cf42a212f552e8fa7e0 *doc/BaalChIP.R
218493e6b88be988640a5421a7aafdbc *doc/BaalChIP.Rmd
916386094278b382e5d2cf78b8eb27b0 *doc/BaalChIP.html
a0cd49b193285b36eff89c7c1cf739b5 *doc/index.html
f3740b5b23040b009ef3773971635469 *extra/get.overlaps.v2_chrXY.perl
2839f9d957e8408f360a73c807dc577d *extra/run_simulations.sh
60a5dd8af3212a3cb7f2ec05d2a1c161 *help/AnIndex
d548407072d712b17b313b9b1c80bf52 *help/BaalChIP.rdb
e20608fae5cbb118b338478c0455c0a2 *help/BaalChIP.rdx
9f1251fb16df824e549eaad064578a83 *help/aliases.rds
b06476f7d55177f078dee7eb804dc747 *help/paths.rds
74bb131e3311badc2ad5ebdc7bf3054c *html/00Index.html
eb7b7891c861a9952341300fb8e1e866 *html/BaalChIP.get.html
fdb15a49a5117f1fecabc4d115f8d433 *html/BaalChIP.html
d8d9f49a3424947dff38e47f01d7b730 *html/BaalChIP.report.html
4fc4c492b6840749b5371519a2101082 *html/BaalChIP.run.html
25a7e18232c9af5920fb18c87ed625ae *html/BaalObject.html
4289e23ef66789cc4d6fab9ab5d3b209 *html/ENCODEexample.html
2bf6ff094aa3251bcaf0409448d2cffa *html/FAIREexample.html
bcaab8326d8bf8a6721c28d03b29f155 *html/QCfilter.html
b6763e6916890c631fdc3f2643803b1a *html/R.css
7a0fbd0fc0b15e52da039ca9653ae8e9 *html/UniqueMappability50bp_hg19.html
2c5c8728a9aa3f82e3be7c57e8ce348d *html/adjustmentBaalPlot.html
d752c9fdc76a31b10d37694219c5c665 *html/alleleCounts.html
ddb273e1b5844293ca8dbb8b0fbdb2ed *html/blacklist_hg19.html
bc47b89ba9432036f70ff5611c8df6a4 *html/filter1allele.html
66f0b9b4266c7aff6e10672ae81c3e85 *html/filterIntbias.html
84b2da6580554f0aa758085ef7b5e725 *html/getASB.html
bfa4945fd31eb16f8017903b124624f7 *html/mergePerGroup.html
5ee062239d6f68b21a29066c32640db3 *html/pickrell2011cov1_hg19.html
c6d53b17212d6b9ed22b62699851af21 *html/plotQC.html
acdcc33f0cb18c496b6a8a82ef830f08 *html/plotSimul.html
feef21b6de29d9c29a0e994958b5ca20 *html/summaryASB.html
a39d3acab0c5d70118be93c965ad6b3c *html/summaryQC.html
aef76ff89c48aba2836b3513c48f19f7 *test/AMOVC_hetSNP.txt
6f96297112143141b7722d1d8e1fd20d *test/GM12891_hetSNP.txt
14febf61389ef198586e9074ba9eaca8 *test/MCF7_hetSNP.txt
c1be60bd8936a53b079829368f57d76c *test/TaT1_hetSNP.txt
49acfc2455f48ad0190affee3372a634 *test/bamFiles/AMOVC_1.test.bam
1c1cc28d69259e2c87422d61205f539b *test/bamFiles/AMOVC_1.test.bam.bai
f67f8ecb8ea2d66c30a1122a826a6af8 *test/bamFiles/AMOVC_1_gDNA.test.bam
d18eba452a93662a289675442e94f1f5 *test/bamFiles/AMOVC_1_gDNA.test.bam.bai
6d5bf9cfd0dedeedef41bfd5443fb5d6 *test/bamFiles/AMOVC_2.test.bam
be60f1e7b165c1c1d0652e9ffd679c9e *test/bamFiles/AMOVC_2.test.bam.bai
b3ce873d07f0e6ae99abb9d9b6ecfe3c *test/bamFiles/AMOVC_2_gDNA.test.bam
128b4d27f35763fc65bc44cbc45ac902 *test/bamFiles/AMOVC_2_gDNA.test.bam.bai
028c88d8fb7fef3f0442989943a78e51 *test/bamFiles/GM12891_PAX5_Rep1.bam
17324b40c7882848277978bedc306465 *test/bamFiles/GM12891_PAX5_Rep1.bam.bai
f5e867bdc8995501db93f171735c3f68 *test/bamFiles/GM12891_PAX5_Rep2.bam
0ff0682341c9144b5daee17c44edcb47 *test/bamFiles/GM12891_PAX5_Rep2.bam.bai
91983547913597ab2053ab19fe64a248 *test/bamFiles/GM12891_POL2_Rep1.bam
61a277e3330287fda5ff20a3ca1f78a4 *test/bamFiles/GM12891_POL2_Rep1.bam.bai
a12194d39aeb5b2ebbde87133c18e6dd *test/bamFiles/GM12891_POL2_Rep2.bam
2ae0a12741ac35d0831298e20d98656b *test/bamFiles/GM12891_POL2_Rep2.bam.bai
997d49ae212f74f97a64b01aed6546f6 *test/bamFiles/GM12891_PU1_Rep1.bam
998b4bcdcdb186e1fd5b58d30683f0c5 *test/bamFiles/GM12891_PU1_Rep1.bam.bai
7a22cac3de49546054ef8f8df82a42a4 *test/bamFiles/GM12891_PU1_Rep2.bam
636219877ef28effcd1b244e1bcdab16 *test/bamFiles/GM12891_PU1_Rep2.bam.bai
6233cd0dc9d7c062d13949fc5e77c084 *test/bamFiles/GM12891_TAF1_Rep1.bam
a187811722215c1fd8430933fc38a3d6 *test/bamFiles/GM12891_TAF1_Rep1.bam.bai
c24c39c3f48b953c42348cd4eeeaddd7 *test/bamFiles/GM12891_TAF1_Rep2.bam
df936a76adc86017fb5a5cb03e8d4ac1 *test/bamFiles/GM12891_TAF1_Rep2.bam.bai
2f061f9fa55774118e1bf2a5a1ac963b *test/bamFiles/MCF7_POL2_Rep1.bam
0561c08429e2e8943d35af48c71975e2 *test/bamFiles/MCF7_POL2_Rep1.bam.bai
127547cdd50b20977517f64b929c1373 *test/bamFiles/MCF7_POL2_Rep2.bam
3e9c12865389446af2ec524bcb11c72c *test/bamFiles/MCF7_POL2_Rep2.bam.bai
9dc0992886e0eec82f9c78ae1ed98633 *test/bamFiles/MCF7_STAT3_Rep1.bam
3073b4b11a64775701451e6180910eb4 *test/bamFiles/MCF7_STAT3_Rep1.bam.bai
b0cecc2777ba6181ec9793ebb38bd527 *test/bamFiles/MCF7_STAT3_Rep2.bam
c701a2fcc5c4924daccb6aeed7d7804f *test/bamFiles/MCF7_STAT3_Rep2.bam.bai
08385ed6c2ae1135ca32abcfd82c2ec6 *test/bamFiles/MCF7_cFOS_Rep1.bam
f705cd0ccb3125dbfe19fde5e2a51009 *test/bamFiles/MCF7_cFOS_Rep1.bam.bai
2f2399c06008420a4121f80a9bebb0c7 *test/bamFiles/MCF7_cFOS_Rep2.bam
c5572f6c3713a141646328216b9e346b *test/bamFiles/MCF7_cFOS_Rep2.bam.bai
be47444486cdc2b49dc1cf7162d74b37 *test/bamFiles/MCF7_cMYC_Rep1.bam
43520f9617f87624ed543d6814b1326a *test/bamFiles/MCF7_cMYC_Rep1.bam.bai
0734a720391819ad958f13999556610e *test/bamFiles/MCF7_cMYC_Rep2.bam
ae2ef6b5b4affbd6ff7bcdf863c9deca *test/bamFiles/MCF7_cMYC_Rep2.bam.bai
4c03f33244a44fe39515e6d1bb036df3 *test/bamFiles/TaT1_1.test.bam
fe1dedee858bf49edad20739b5bb1abf *test/bamFiles/TaT1_1.test.bam.bai
d6cc3b916995e4bf48bae8e74e522fe9 *test/bamFiles/TaT1_1_gDNA.test.bam
3748a56f5953699475cd3f21bec30096 *test/bamFiles/TaT1_1_gDNA.test.bam.bai
4f952fb07d1f9e2b740613ea7a210a98 *test/bamFiles/TaT1_2.test.bam
c520097c7d258a1f0b6a5f06141b5993 *test/bamFiles/TaT1_2.test.bam.bai
349667a9277a845fd95ebc190b614608 *test/bamFiles/TaT1_2_gDNA.test.bam
ca3b987727fb4263b84a6bb933abdee1 *test/bamFiles/TaT1_2_gDNA.test.bam.bai
929f55ffc3da8074ab240b76e04d2081 *test/bedFiles/AMOVC_peaks_example.bed
06f98ca796a9f800f28dfb201d4a386c *test/bedFiles/GM12891_PAX5.bed
68597103d71836f6deec44e7dbe1f2d4 *test/bedFiles/GM12891_POL2.bed
116ec66201cde81c531b9708387941b5 *test/bedFiles/GM12891_POU2F2.bed
58726e7f240d620bcbf3be707da2ddb5 *test/bedFiles/GM12891_PU1.bed
d92dd245c5f81dfb0e8635a63026057f *test/bedFiles/GM12891_TAF1.bed
9b41a5263e8b34837bcd6a7ed101d8c9 *test/bedFiles/GM12891_YY1.bed
d035f3fd333747f9d006bdfd39e282e7 *test/bedFiles/MCF7_POL2.bed
abd241e937dc3b71e644684a4422ca75 *test/bedFiles/MCF7_STAT3.bed
fdd7d031d25a131143a6bd5d27c782d2 *test/bedFiles/MCF7_cFOS.bed
1bab8af2bfac63a1ac655346de435642 *test/bedFiles/MCF7_cMYC.bed
6f5c5c4dccbd771660516521f143574a *test/bedFiles/TaT1_peaks_example.bed
53365a0679703dc81ee4a1e1b951d94f *test/exampleChIP.tsv
53365a0679703dc81ee4a1e1b951d94f *test/exampleChIP1.tsv
bb8d4115443b3ef0f6035eb69a851b41 *test/exampleChIP2.tsv
e913c81322ae9dc1e03b32455c017a95 *test/simuloutput/c67c6ec6c433_aln32.bam
d061626a3eb22f7d365c08d31ae6c8c2 *test/simuloutput/c67c6ec6c433_aln32.bam.bai
a1fab3b7b5d897a0699b2abf6468db32 *test/simuloutput/c67c6ec6c433_aln32.fasta
05571db9ed312e90e11b0c3736e86261 *test/simuloutput/c67c6ec6c433_aln32.fasta.sam
2365d78dc6554c234bdff66cb7cd75c4 *test/simuloutput/c67c6ec6c433_aln32_snplist.txt
05ac5211662361082559cb329a47e5a7 *test/simuloutput/c67c6ec6c433_aln34.bam
8b5e3a044dd05dfb92fb8db7fde3ff71 *test/simuloutput/c67c6ec6c433_aln34.bam.bai
a5b675819f83fe2c0df8a7413a76feb6 *test/simuloutput/c67c6ec6c433_aln34.fasta
9399ebfb7dc77fd0f55ead28f7277684 *test/simuloutput/c67c6ec6c433_aln34.fasta.sam
b71ba0d4c0ab066b48f80663f53f5309 *test/simuloutput/c67c6ec6c433_aln36.bam
c43a70ce0f97d7a193804558ce7801f9 *test/simuloutput/c67c6ec6c433_aln36.bam.bai
f142dec4a976b5abe0acaaa5089def56 *test/simuloutput/c67c6ec6c433_aln36.fasta
237245fd81664a1fe42cf8474c1b4f77 *test/simuloutput/c67c6ec6c433_aln36.fasta.sam
18bac19354572692976bcc91e61b7118 *test/simuloutput/c67c6ec6c433_snplist.txt
78e0e36e57a587d0fa71f43259726e34 *unitTests/test_get_allele_counts.R
