c2b332b40dd57007c62e4b485052224e *DESCRIPTION
2710d86b7a52bca8d4b9030baf31ab87 *LICENSE
279bba589d8d53a7b791263322baef63 *NAMESPACE
556c597e6dbfcb56dd2686d62f57cf41 *NEWS
d430ee1c0dddb1d591f6d51ce6c3b087 *R/PromoterAnnotation-class.R
049c6e2f0dcd55d2e5a4c39f6c35ab99 *R/annotation-data-helper.R
34b01e1fba84b746b3c1d05be85261eb *R/annotation-data.R
c5fbe1012ccfbe04f7e500d58d9c263d *R/data.R
158f30e7dd4a75f3be263e35ae46ca67 *R/deprecated.R
9edb3e5cf3434cdea62a26e6cd01d0e5 *R/estimate-promoter-activity.R
23c0bf0146df5d5af6db684a2b626445 *R/identify-alternative-promoters.R
18ad965f724c5e6c251ed2e2a1fa625d *R/junction-read-count.R
403bdce4b78e7e7326f1b74fb869d0f8 *R/plot-proActiv.R
d3ab6b96897b88e49c617e4ca5a5c265 *R/proActiv.R
336b19aa5526eafb2087b3272b338727 *R/reexports.R
2cd4de8dfd2dbdeaf6b9831f84e1b6be *README.md
7dfed6a8e921517cd7e172eaa99c73b2 *build/vignette.rds
aa4d82b78908edf8205aa338643e22ca *data/promoterAnnotation.gencode.v34.subset.rda
432e2461a99dbca86c3d55f452b062d3 *inst/CITATION
7b2b81bf77cfa6faf9a0e420d76ca4a4 *inst/doc/proActiv.R
128380c43954373296446807f8e9f126 *inst/doc/proActiv.Rmd
e6c4a55f5e754157c73621c99abf0142 *inst/doc/proActiv.html
b9307cda10701ec17b5eda6b6bf4e037 *inst/extdata/testdata/bam/SGNEx_A549_Illumina_replicate1-run1_genome_subset.bam
0df3f91a3764a0ffa2b5062bd61e1ffb *inst/extdata/testdata/bam/SGNEx_MCF7_Illumina_replicate2-run1_genome_subset.bam
af5befa188b47088af2d7498769882ff *inst/extdata/vignette/annotations/gencode.v34.annotation.subset.gtf.gz
7c37b3ccf26021d93238624da184620b *inst/extdata/vignette/annotations/gencode.v34.annotation.subset.sqlite
2dfff9f9f859e781168e39f33322d402 *inst/extdata/vignette/junctions/SGNEx_A549_Illumina_replicate1-run1.subset.SJ.out.tab.gz
f38044d918431184c68ee8de6324ad90 *inst/extdata/vignette/junctions/SGNEx_A549_Illumina_replicate3-run1.subset.SJ.out.tab.gz
bf7fedbdf3a0170e1e3e09abd5326673 *inst/extdata/vignette/junctions/SGNEx_A549_Illumina_replicate5-run1.subset.SJ.out.tab.gz
919414dcaefcbdf133f9bd0a7b2e82fe *inst/extdata/vignette/junctions/SGNEx_HepG2_Illumina_replicate2-run1.subset.SJ.out.tab.gz
ffb766828b1c483f9fa353b5d81f36da *inst/extdata/vignette/junctions/SGNEx_HepG2_Illumina_replicate4-run1.subset.SJ.out.tab.gz
3fde426e9046a51c49dfb7c3e18f3373 *inst/extdata/vignette/junctions/SGNEx_HepG2_Illumina_replicate5-run1.subset.SJ.out.tab.gz
16d4e7db883dd302d323ebd0a514ccb8 *man/PromoterAnnotation-class.Rd
9c0e3efaf661c554257a33ef51a7daab *man/boxplotPromoters.Rd
a19318d5a97d1b2a8c083bc4ca0c96c3 *man/calculateJunctionReadCounts.Rd
73b80be1f9d81f4932f9acaed0e3e0d9 *man/calculatePromoterReadCounts.Rd
a8dff878cc99dffea5e2b8c1fdebd75d *man/figures/proActiv_design.png
66a9381b81d93f99505f446d1093e55e *man/figures/proActiv_logoName.png
962a94d902c38114f8b0e474ccb575a4 *man/figures/proActiv_name.png
36a29bb24da34bf624032009f4fbcf03 *man/getAbsolutePromoterActivity.Rd
7f13db1a2015cc041487b55cc07ad6bd *man/getAlternativePromoters.Rd
ef502c28ea452423fad9fa7866474146 *man/getGeneExpression.Rd
66ad9e895b8a9e2fe6db86869390a170 *man/getRelativePromoterActivity.Rd
206732afb621cb908a9aac432b05702d *man/integrateProactiv.Rd
0dc4fa51019cc56e349d92ede3469518 *man/normalizePromoterReadCounts.Rd
e12ce438db064dab2f31db69fd9bee35 *man/plotHeatmap.Rd
2b7e7e80191d4a2777093dfa236fb541 *man/plotPCA.Rd
6c1c6b2ca3ad49dbec1c14148a63e918 *man/preparePromoterAnnotation.Rd
4ede889e041e63a7bd8c2e0e721174c5 *man/proActiv.Rd
2235ea00e366c29e23401357ba4ed1c4 *man/promoterAnnotation.gencode.v34.subset.Rd
b4296c5e8de2431f8b193bdd5cada0fc *man/reexports.Rd
e9a16bcba1c521977776cda238112ad2 *tests/figs/deps.txt
5c85fdf55df84b8eb3b0e6b0cdd40774 *tests/figs/plotpromoters/plotpromoters.svg
f708a85707911df84ad0b658a09ffb59 *tests/testthat.R
af5a3cbc45f6c5abf38e620798e7fc92 *tests/testthat/test_annotation-data.R
55d01b94dd5214f50e05ad929e47c23b *tests/testthat/test_proActiv.R
128380c43954373296446807f8e9f126 *vignettes/proActiv.Rmd
