333ae2f07ad1db8bd2b9dd84f475e710 *DESCRIPTION
cc032f681cc6090675a8dc83eea6c5cd *NAMESPACE
3b9eb58bb35e9b5156656850ad7dda07 *NEWS
3d90acec32b53385cc5393803248b992 *R/RcppExports.R
18a9086f01a82c07f8a1a769ceec3618 *R/add_multifreq.R
4e25c397c3a3ed44de71844497de66cb *R/compare_motifs.R
05255949a43b32f3e40ec0e56b5fa1d1 *R/compare_motifs_lite.R
9065649dee87a329cd0abaae647a014b *R/compare_report.R
26613d0e81fa7bed968726b2578609f3 *R/convert_motifs.R
a2a91dfb117f49dc13c65a500acdd3fe *R/convert_type.R
dda5ed54c0486a97843f60b7deab3e0f *R/create_motif.R
fdc91aebc6eac8116df4e4dfef6db2fc *R/create_sequences.R
1957851d6bfaa7d5cad41e36736b540f *R/data.R
1be0aba24ca33a513f476b2220be89fa *R/dedup_hits.R
cbdfa712fae8dfdaa38b782f8ffd9da5 *R/enrich_motifs.R
3ce247f931b2d97e823453c76b258da3 *R/enrich_motifs_lite.R
275e4b02407b6548ada609ad372c7009 *R/filter_motifs.R
798f5efbdf95847a62115350e7912137 *R/geom_motif.R
d7a04e8dd69558a07664a3b55064a260 *R/get_bkg.R
28bc1554539cec9b212def07c2f13843 *R/implant_motifs.R
dc828448035d6280814673a76ce4298c *R/make_DBscores.R
55be71fa990576066a35c10db4f39492 *R/match_bkg.R
819205684a1a5f48c25e9e24fd402737 *R/merge_motifs.R
cb3f802c6afbf1cb64d03b52a4682542 *R/merge_motifs_lite.R
94be50d5e3f9b7227c2934001460e61a *R/merge_similar.R
0afaf39dd68b63130b022d7a89444d79 *R/merge_similar_lite.R
9977784985100e261e47a71bccf9cd73 *R/motif_coocc.R
e257d246a917b70998d918bf56b75cd8 *R/motif_finder.R
0897c3761641446ceab18ab16bf8c45a *R/motif_peaks.R
487ec9abcb57f4429bb3d81d381a5425 *R/motif_proximity.R
6b2aae684d51f0a76f84a069f4e24afc *R/motif_pvalue.R
de255211ccab3c6a44a924301c2e33be *R/motif_rc.R
9f79593b5ee3e676380d93849ee6bfc6 *R/motif_tree.R
ebb1784244310d4a42a590511c8eae0b *R/motif_tree_lite.R
b51cbe2134d23f24050d56d08b23e9f2 *R/read_cisbp.R
a6ef447ff114d16acc3b2cb4c5972430 *R/read_homer.R
9b2e92021ad86a77dd879a9330556a46 *R/read_jaspar.R
cd66b6f74d15211f977be49f44b75ea5 *R/read_matrix.R
10283b04bd9f13c04180fec26a32ae0e *R/read_meme.R
d41a086c981caa5c8179d39eb28dfe30 *R/read_motifs.R
19099f84697052d64a5f88a3486f1ea7 *R/read_transfac.R
351fccb5f76c22d3cf5d9302dea25909 *R/read_uniprobe.R
c50025feb7a7c20f35d3281d8cc8aa59 *R/run_meme.R
70dbd5b4299658b447e0fbaa22863c78 *R/sample_sites.R
e8533404748388409f93ef50e34296d7 *R/scan_sequences.R
2100535de03c253d440a1c3248bc9ba0 *R/scan_sequences_lite.R
e84803c565680aac1d71263bafd6dedb *R/sequence_complexity.R
85b6627ee29593d97e5999223a9e5629 *R/shuffle_motifs.R
0b165b74d3f0910bb979c2ca297e20b2 *R/shuffle_sequences.R
c2a48d26fbec274b3fefc24855e95584 *R/switch_alph.R
dd57004b5115f54a4fb71bc0eaccce68 *R/trim_cwm.R
1814a98835d1c0300fd14b46c98e3320 *R/trim_motifs.R
342e27f46f7685c8a126df4a496f142c *R/universalmotif-class.R
fdd2fd9bc1e3d3b8cefdd0c3e0a941a7 *R/universalmotif-methods.R
463236c416d2a21e4695f74b52379594 *R/universalmotif.R
90c9fc622e2f8fdd520a528235b01cdb *R/universalmotif_df.R
f5ad8aeab5fee361b37a8b5e58a58dd1 *R/utils-internal.R
e83fb5eec2f89337e5187d1dc61a0321 *R/utils-motif.R
513321eecbeef19f9c9515f53b7a39fb *R/utils-sequence.R
4c7e3574b40f8e43aabf4a73429dd067 *R/view_logo.R
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b9ee332cc04e162daf4d0cfb5db3715b *R/view_motifs_lite.R
b295f8cee15eed48d26e243a7a3e40c7 *R/write_homer.R
26515daee6ff0c6e4805635b49c048fc *R/write_jaspar.R
84d2181a245e99688ec01ac72510c65d *R/write_matrix.R
0f13baf80334afff183bacc6787e8615 *R/write_meme.R
8ca697b240ac45d9068363d1c3c0adb4 *R/write_motifs.R
9b0360ea98f8d334460a7d7aab90a306 *R/write_transfac.R
5f8c5e1a940f535645e41f3988ba5e08 *R/zzz.R
300e79b789901cd73069be2b7e879bb0 *README.md
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7171ffb6416be7a1698434933de9b59b *build/vignette.rds
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a613f1a8d1c38b7d08cea6a02f8d1930 *inst/doc/ChIPseqWorkflow.Rmd
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82422a51052edae478fded003bfede2c *inst/doc/Introduction.Rmd
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782e27da61cc0b2ea269bc01a8a57985 *inst/doc/IntroductionToSequenceMotifs.pdf
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8fc4f88b0452fa617ef846dc8039c729 *inst/doc/MotifDatabaseCuration.Rmd
50ba36d77cda67a019fe4ad35b8bbd9f *inst/doc/MotifDatabaseCuration.pdf
6f810d345037f5c2c1568393f2156ed8 *inst/doc/MotifManipulation.R
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928a3674fd7a0f45f811e5a02cb2fb49 *inst/doc/MotifManipulation.pdf
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3a04db41a17bd29181997b04d868767d *inst/doc/SequenceSearches.Rmd
5a1571baffeab621b2563c1a7544b35f *inst/doc/SequenceSearches.pdf
5ed00b008fcb103ea143cc171630d0f7 *inst/extdata/VAL1-GFP_val1_calledPeaks.bed
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5a12ccc2085c2392d7551fee171455c5 *inst/extdata/dreme.txt
4cecec99fe4ab206f13975d6093eb915 *inst/extdata/hocomoco.txt
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e6b0f8b479b936f984ef01243e8f5df5 *inst/extdata/jaspar.txt
6548da897ef43bec4d49c322bd79a091 *inst/extdata/meme_custom_alph.txt
39207ee07de83b383f8521d916c75774 *inst/extdata/meme_full.txt
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582aba832d47b73437c26bb3d404b33e *inst/extdata/sites.txt
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4ecf8e379448fe83328c641cdbfee51c *inst/extdata/universalmotif.txt
eeac9d4bf34a84d31d6d5079b86bf5cc *inst/figures/cwm.png
5e29532dd526357344874a3bc9b82de0 *inst/figures/example1.png
4e60f3c14bb1d00b9eaca1667aed0f99 *inst/figures/example2.png
6c12bc59792884fd3bf98e5705a8c6ce *man/ArabidopsisMotif.Rd
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a8fa910492c236b5c9ef28aa95756c89 *man/JASPAR2018_CORE_DBSCORES.Rd
67579ec2ccd27f0427b2b4d55d18ab83 *man/add_multifreq.Rd
335197cbb7aeb138a3f5fc98f730eeb8 *man/compare_motifs.Rd
7910784181c53c8a28829b2ea5b850c9 *man/compare_motifs_lite.Rd
7be78345e185f0759580d47efa940cb3 *man/convert_motifs.Rd
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8257c3207ea5fc8d6f32df458bd62a5e *man/create_motif.Rd
5d63bd5c46e882f65e0b3267b47563a6 *man/create_sequences.Rd
74a4c241fc0dcfb200a2a435813ad25f *man/dedup_hits.Rd
93e28636ec9d280ab3e021bc0e20a630 *man/enrich_motifs.Rd
bcffb9ae660f1bc1c21e6109e5f56513 *man/enrich_motifs_lite.Rd
0a87580a52fd4479423717b381f6c241 *man/examplemotif.Rd
3f236740ad5329d3cf73b6dc3d3a301e *man/examplemotif2.Rd
3f58fb20d74e6f25cc9703e47b1455e9 *man/filter_motifs.Rd
de727e977f7c6a3908c00eafab9c2c73 *man/fontDFroboto.Rd
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373c701cc56f3e41fe1084d14ecc70bc *man/implant_motifs.Rd
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12e9c36f515198688c54a2f7bc895ff5 *man/match_bkg.Rd
65c4f23dc5a6c1b6c5517e54b776d843 *man/merge_motifs.Rd
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8292bfa9d90ff9d0ed8ba31dbbcff6d9 *man/motif_coocc.Rd
7c120bd06831f8533079150b486d94c4 *man/motif_finder.Rd
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4eb662796637ada34d4577702c66fff9 *man/motif_pvalue.Rd
79777a15400baff69ee19314705f5718 *man/motif_rc.Rd
b6f5bf0f3229982e65d6c18303df066c *man/motif_tree.Rd
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6dad0312c5be0ac56288e78e0ad761f2 *man/plot_motif_peaks.Rd
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714811310d47ec85c5f4a517a2b2e74a *man/read_homer.Rd
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9391156ba82b4b1b6571f90cf7b60317 *man/trim_cwm.Rd
815dbc13a49a2a5f295d5cec6687c6d5 *man/trim_motifs.Rd
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319578c165e447cbc05fbc04810a4b9e *src/add_multifreq.cpp
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