288e321ebbfe3a29f806761da1928033 *DESCRIPTION
0955bb8ca3948002d67a6c477d7d44b0 *NAMESPACE
7ed4874d825a85c5a4a299c2a6da5cdf *NEWS.md
eb9fe5cb5fad1b2ea87eadb74dc0b30f *R/AllClasses.R
d674f6a5c2f5f075785c02518ef272a3 *R/analyse_go_terms.R
06aa1cd2d726400cdf23af665fffdb31 *R/browse_igv_regions.R
a611822574803c67c4650e9d1d2f502e *R/damidBind-package.R
ee9756783778767480fc7fe8a6e89349 *R/diagnostic_plots.R
277471153a107fadacbb66897127e93b *R/fdr_calculations.R
7fabb63dda0c4fc7dbfaa2d19fd1766c *R/get_ensdb_genes.R
67439ec82901c883e52f18fae31859c2 *R/globals.R
47a219da2c2bcd08691c70ac0c2003ec *R/granges_functions.R
ed4e95ed320b278eb0cf216c6e08962a *R/limma_functions.R
47b6f0a2c7dba0a5ab9e660106b039c0 *R/load_data.R
2c578b45e90aa4385408ae5649ce060b *R/methods-DamIDResults.R
9d488d6861a1b4cfe1607d32c5910781 *R/noiseq_functions.R
2c92b2c77fe6d7eac31e1970711483e1 *R/plot_venn.R
e6a9d66dac854bba4327afa5ee17d911 *R/plot_volcano.R
875996b1deebcc646cd94772e8b9830d *R/prep_data_for_differential_analysis.R
23ba755dd50950ed9cd923fdbd013e92 *R/quantile_normalisation.R
fa4000dc12d445ceca816379c4a1bdb7 *README.md
41863622d6bcd1992717b2dd52fc576b *build/vignette.rds
3e5e4be7d8c7bb9e0e76e7fb399587ec *inst/CITATION
4c4ca87ceea1c310e61d400c4b5dea27 *inst/doc/damidBind_vignette.R
005c50b20739eac63ff45ead0b9fe8c4 *inst/doc/damidBind_vignette.Rmd
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fe1ff9c8301678566206764a20c5d47e *inst/scripts/data_provenance.md
dcb7235c7d890a32557b1cbb3d47d314 *man/DamIDResults-class.Rd
35151d23b6de85dd6bb0b1299b572a16 *man/analyse_go_enrichment.Rd
e3922830e149e36d3cda884910daaf80 *man/analysisTable.Rd
722049269112754cb49fa42829a107d2 *man/browse_igv_regions.Rd
a8688fe9821b85a8a3a849f97facd049 *man/calculate_and_add_occupancy_pvals.Rd
c0f333f3f53f39ebca4fee17e6b5e8e6 *man/calculate_occupancy.Rd
d0cc77fe5114c6f471a0b66ed2283d75 *man/conditionNames.Rd
b1fdeb95a1011448477467abad73bf7b *man/damidBind-package.Rd
abf78c033dc041caeaa38a9acea576b3 *man/differential_accessibility.Rd
ba5449bec8184feb4886f207e0dca2bc *man/differential_binding.Rd
a4dec5217c57c1d12e32dfb1b4feadce *man/enrichedCond1.Rd
97671d51c54d139d1b073ec5ac5ccf2b *man/enrichedCond2.Rd
3d4c7dcc9f5ffb34ca92abe7053b64fe *man/expressed.Rd
485d6c698f72a3eea5c878ad5867f4bd *man/extract_unique_sample_ids.Rd
bd312ca2b445327d28269b37cbbc1fec *man/filter_genes_by_fdr.Rd
fe656adca254052ae7864c5930932242 *man/get_ensdb_genes.Rd
766993d13307139a38b4fc4cf9bca5fc *man/inputData.Rd
28d44254dc29b76d482795daef3cd1cf *man/load_data_genes.Rd
f7c1508bc5f6c4253cf52cfb0db1ad44 *man/load_data_peaks.Rd
6ef5a0d369d01685538f167238b6dc09 *man/metadata-DamIDResults-method.Rd
cab803cfe1cf8859b48a8e873db3effc *man/plot_catada_mean_variance.Rd
f5fae29e57feea72809a2111ba71b5a4 *man/plot_input_diagnostics.Rd
3f2a6d4d35bbff6707c12be52eeccb3a *man/plot_limma_diagnostics.Rd
bcdfb4f2f16e614db176d4d1134e8406 *man/plot_venn.Rd
37248dafa38a494f04f3172d2a76d198 *man/plot_volcano.Rd
080d751daba963f105590d66bffa1410 *man/quantile_normalisation.Rd
1c8827281c13a2b43d78582c307b5b68 *man/reduce_regions.Rd
b3b472829dabba81bda0d21c55dd1bbf *man/sample_labels_by_isolation.Rd
c114ae8b72aea51a19275993a32890f4 *man/test_weighting_vs_bias_artifact.Rd
40867d71e94ad8dd025a4b2b5d22ad21 *man/test_weighting_vs_bias_batch.Rd
3411cb70f5580f7acf579518b738228e *tests/testthat.R
45c9b669f6e0b173159008f52deec7ad *tests/testthat/_test_helper.R
275560d2db461b9f81cdfcd0a47a4d76 *tests/testthat/test-DamIDResults-methods.R
e5fe461b5ff658997be7395b5cb21945 *tests/testthat/test-analyse_go_terms.R
8bbd77ce905f84578222b2ed048b411b *tests/testthat/test-fdr_calculations.R
3576858e35ace359ce92f29940c6ffc0 *tests/testthat/test-get_ensdb_genes.R
0ae8198e7a978deb6947ee92be90d87a *tests/testthat/test-granges_functions.R
23f20f342faee328c94d7b21c10ad20f *tests/testthat/test-limma_functions.R
22bacc8a854760e187b1ca5901c869d7 *tests/testthat/test-load_data_granges.R
6643bc973b1abfb60729e9484bb14601 *tests/testthat/test-load_data_peaks_genes.R
c274800e3569656517eee265e9cf7bc6 *tests/testthat/test-noiseq_functions.R
a90bfa5de10637cb320f0543fa8288bd *tests/testthat/test-plot_venn.R
c0f05cedfcca9edab9a71ddb3939c0e4 *tests/testthat/test-plot_volcano.R
64b115f853c6d2cc4ca73b8f94052147 *tests/testthat/test-prep_data.R
b399f4138f6d5d6091fe942b929288a5 *tests/testthat/test-quantile_normalisation.R
7da928da8bd9348be5373d8f1ce60155 *tests/testthat/test-utility_functions.R
005c50b20739eac63ff45ead0b9fe8c4 *vignettes/damidBind_vignette.Rmd
7a640c7d9c238f7b9d10065e08626eac *vignettes/damidbind.bib
41f0a40342925d87871ff7d5c12c6c19 *vignettes/embo.csl
1aba153823950b3c04ff71e102966814 *vignettes/figures/damidBind_L4.png
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3e2f2f48bcccab82f028197e18079bfb *vignettes/figures/damidBind_igv_example_2025-11-29_18-20.gif
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9a2438d314034daa083db729069bd951 *vignettes/figures/damidBind_main.png
