781e39558b9c1c7cfb152d68010cc301 *DESCRIPTION
18b323ea791869cd708f7c299d4be4fc *NAMESPACE
1bd1fac67e41eb2476e7f75aa17621bd *NEWS.md
a6afafe0ee990c40be299f2bbb36e5c4 *R/VISTA-class.R
cc65b1b060fa464a927e185eede761b6 *R/accessors.R
0cf10c62376eb33e0221425d26ecd9c2 *R/benchmarking.R
6bfd6ced026151de3269759c780b4497 *R/bioccheck_roxygen_fixes.R
ea23a3f04f261c80fe1e9c1dcabe781d *R/data-documentation.R
40279e8fe91772f6da4f18de1e801fd5 *R/deconv.R
3e6c1099ba8bd6e7a70868f9f22b5137 *R/example_vista.R
d06a57b2256afc20c0e84d6082508400 *R/exporting.R
70ffb8a05760be9aebbb2bafef4cd5f7 *R/functional_analysis.R
02ba08aa2b4e58cc34eca1fe60db1a39 *R/input_preparation.R
b17a6fffa070dff0f0ae1dda3dfee48a *R/print.R
be755015c729b6be4515a8c478f3836d *R/reporting.R
3bea788d0efcc97b7ce927c2e22e0cf9 *R/rnaseq_related.R
52e34aa8763e873b05f773779597b817 *R/sysdata.rda
10912e3555c4ff2067eef2f0cd0ee432 *R/utils-internal.R
d44fdfde17174f473f648161af6d3a95 *R/validate.R
2f7c281311f7dc864a07fbbb1de9704a *R/viz_related.R
8216fdd4c173717758f6f52e908819a5 *README.md
4ec3e1fd0a34ba0a3e0e1c5651d90e48 *build/vignette.rds
4a7c43a9aa2f64c278ffe4bac06c122a *data/count_data.rda
200fe0c696e97b60acaed3fa6701fdbe *data/sample_metadata.rda
bca1db23480e24c56483a29360346d6b *inst/benchmarks/benchmark-de-equivalence.R
9cb13010bfb2e7f369783b22b02c6913 *inst/doc/VISTA-airway.R
26ee9fc717d721a415e200eeed45b1ba *inst/doc/VISTA-airway.Rmd
c0ca42f4ee6956cdd78ede3fe63a5f2b *inst/doc/VISTA-airway.html
cc69ca1b93672319aa76b2d194c885db *inst/reports/vista-report-template.yml
30b1d7a509a51d79aa52f4a9b2fd898b *man/VISTA-accessors.Rd
e45ecf0a4cf24d3a1302f7f57ed09a2e *man/VISTA-class.Rd
a81f58962c817306771ae8a5b915ef5a *man/as_vista.Rd
47eed9bfe247ca836fe9297f4bd43417 *man/benchmark_vista_equivalence.Rd
040797d1246984fed738a584075eacb2 *man/count_data.Rd
813c04a277bbe3439e6e570275636e77 *man/create_vista.Rd
1dee9c2b1c1e1d0eb20bfbed35b28d00 *man/derive_vista_metadata.Rd
6dc8d4bd3042ed65ec56008a6f5a3beb *man/dot-EnhancedVolcano2.Rd
4a1ecbe1c53a5c031fc9d40a06d6e485 *man/dot-align_de_to_counts.Rd
8815a986f93f63f5a7f7be678fee657a *man/dot-categorize_deg_results.Rd
f8d884fcb5166010bfbb763ae8f918fd *man/dot-cluster_log2fc_matrix.Rd
62a5ef9036484ff6306cb14147d6b096 *man/dot-filter_genes.Rd
a6e612684ee69e37a0ff2589d2020abe *man/dot-plot_corr_heatmap.Rd
e0ac08a6994f7c41419c31854d3cb480 *man/dot-plot_mds.Rd
57536bffddc29c6e7cbdb7081c237a11 *man/dot-plot_pca.Rd
61a7cdedced051ea2369ca8af26e4436 *man/dot-prepare_corr_matrix.Rd
01e4ef2677555ad5b7e7f56511f63dd1 *man/dot-prepare_mds_dataframe.Rd
56756e475b5aa71db763a81b9f44bc29 *man/dot-prepare_pca_dataframe.Rd
33b60aefd3c8eaa7a6a232f0f49be692 *man/dot-prepare_sample_metadata.Rd
385d8ec0dc68beed91966419c108e394 *man/dot-run_deseq_comparisons.Rd
828741a4ec06ca12f855640773b571f1 *man/dot-tidy_de_results.Rd
a57f5cfe00fa7d6da1a45aaf421a68d5 *man/enrichMsigDB.Rd
cba220d27b2fa81827fd9a147eee1f9d *man/example_vista.Rd
f1099afc53f93e295d640ab27e275a02 *man/export_vista_assets.Rd
9eadd020c53305c03e407eb5138ea1e2 *man/figures/logo.png
7a2345e2a36d1978c93490c1ffdb5987 *man/get_cell_fractions.Rd
da5909b5b9405825bfc3bea82a8ad130 *man/get_celltype_barplot.Rd
61c967a43cc7632a763f17cd22c9b337 *man/get_celltype_group_dotplot.Rd
c1b65e66557bf5a873fa85576bb327be *man/get_celltype_heatmap.Rd
eb2409c658c981546f1e0d56263d2cdc *man/get_chromosome_plot.Rd
03cd2ba7b121a6077b177bbbe0b504ad *man/get_corr_heatmap.Rd
1316e7400a9e961e94cd464f9f05e60f *man/get_deg_alluvial.Rd
25c829213f742e441dd1c8fee26846d6 *man/get_deg_count_barplot.Rd
ff186aa597b28e011934cea21ab97484 *man/get_deg_count_donutplot.Rd
756607b449a443223c7a45febf2e9253 *man/get_deg_count_pieplot.Rd
55103a254f35a10f4fa1d1827b40cbfb *man/get_deg_venn_diagram.Rd
a475a600fc0b467e68bd7e2f4f3d9e5f *man/get_enrichment_chord.Rd
7fe87b7f75bd8245d68fdef060a89a95 *man/get_enrichment_plot.Rd
c99762fa8c63cf12b4ecab6b223d234c *man/get_expression_barplot.Rd
2ab7a7f21360771f5bd21ac1e617dcb8 *man/get_expression_boxplot.Rd
ed49b742120cd1da5982e7c16a71cba1 *man/get_expression_chromosome_plot.Rd
b6b31c4f4415150cdd0486d7dff18b7e *man/get_expression_density.Rd
0ee3fc714f5110126912c63c9a93d960 *man/get_expression_heatmap.Rd
c689ff408c476ea30fad65caa0fc8207 *man/get_expression_joyplot.Rd
4d0b776d86422d7606baa43d63eb851c *man/get_expression_lineplot.Rd
81220fac93d554278519be8bf0217822 *man/get_expression_lollipop.Rd
7c35cd923ac86bfb0365c7e97e6230a4 *man/get_expression_matrix.Rd
507184b31bb1a05ae8732f99c4204434 *man/get_expression_raincloud.Rd
6c498c9febbf4bd0a5754558bb4f6f52 *man/get_expression_scatter.Rd
f8f0fc3a5858cb69e62f84cbbed5b273 *man/get_expression_violinplot.Rd
46327a5990561f9d00276a264a4f1c0e *man/get_foldchange_barplot.Rd
46461c98ed67d3fb90d5aee8157ccff5 *man/get_foldchange_boxplot.Rd
b66a340f836c20e644c7fc53ead99415 *man/get_foldchange_chromosome_plot.Rd
430d71f8417620bfd6ea5deddc8645d7 *man/get_foldchange_heatmap.Rd
b8f87e5b32740bc5c5ed4300ff878a8e *man/get_foldchange_lineplot.Rd
4f37da2359477e4318f9ca5217764ef0 *man/get_foldchange_lollipop.Rd
14922bb5c3fdbc68351693c14b9e2b31 *man/get_foldchange_matrix.Rd
35c3f4d336ff41817edb2a802c4b6edc *man/get_foldchange_raincloud.Rd
a20dc29c9a7ae73331f629bd4dd30e29 *man/get_foldchange_scatter.Rd
55f94e8a8acfaa0c232de4aaf0e15939 *man/get_genes_by_regulation.Rd
d32dfe2f08b8e738b2fc6709939cea84 *man/get_go_enrichment.Rd
b3806d48fb8578a1b36f5531716a517a *man/get_gsea.Rd
886e8fa99f4fbd6f067259eb785852d5 *man/get_kegg_enrichment.Rd
3cfd2488b8587c32cd79bcd0ef2ad5d5 *man/get_ma_plot.Rd
02cd973783dd1e2339662a009d35a204 *man/get_mds_plot.Rd
653ac51eccd836da7b281626b923bbae *man/get_msigdb_enrichment.Rd
335fe16e91a5f9774bca061fa9c32f8d *man/get_pairwise_corr_plot.Rd
1861698aa7b4ecbefa87f2899a1c8e0b *man/get_pathway_genes.Rd
9b18d81589a10fb16791f4798193fc8d *man/get_pathway_heatmap.Rd
898db215d78d3ebd26d2e76fe39102bf *man/get_pca_plot.Rd
7a2b3ea32144179454f1165acdf25be0 *man/get_umap_plot.Rd
0fb87e22aac4cb2602a595023545c51a *man/get_volcano_plot.Rd
cf891e4eb1ff192dc516ea96dd57d057 *man/match_vista_inputs.Rd
8c54b8a43eed6b4cd41ea02470155700 *man/print.VISTA.Rd
5cf763ed616b12815352065299872e69 *man/read_vista_counts.Rd
166f9508505e0b2cda40db3c0b7cc665 *man/read_vista_metadata.Rd
8bfdb8c22771e7bbcb76a3c6dcb38253 *man/run_cell_deconvolution.Rd
328741b2bcb6b70547dcd20b693283ec *man/run_deseq_analysis.Rd
480f6e1d937f8577876197d988468853 *man/run_vista_report.Rd
e49c518d08851b53a51ac31a608c9793 *man/sample_metadata.Rd
83d1053ae7e021261be019d422c02fc0 *man/save_vista_data.Rd
2fa050a23265f4abd54e5c781a9358e7 *man/save_vista_plot.Rd
3b388ba897fd3a64277220d1ee8d56bf *man/set_de_source.Rd
4cf8d1d6a8823d7b1ef5b3131727bb9b *man/set_rowdata.Rd
fad7b47637a2c50389bba8cc30584dcb *man/set_vista_comparison_colors.Rd
23aa98a3aaced18862d8ec8132073c1d *man/set_vista_group_colors.Rd
a2991937d4ef1a899f34f9caae2e94a6 *man/validate_vista.Rd
a28ae516d11982f711e10af6557b5b7f *man/validate_vista_deep.Rd
d89cc2c8a1c9b336d99ca08303a8bc87 *tests/testthat.R
8b917c29a176f95e8851c2e2b86f03e7 *tests/testthat/Rplots.pdf
cf557914ba20804f514846efa2ec3a29 *tests/testthat/helper-data.R
9d1944202326decbcc1c9e1bfa0b13e3 *tests/testthat/test-accessors.R
c2ca5ec191fcb756fccb8272e36dff9c *tests/testthat/test-benchmarking.R
ccf771961df5dc876551100f41f113d1 *tests/testthat/test-class-print-reporting.R
efe201bbd9bad86391fbca240b1b7776 *tests/testthat/test-create-vista.R
f8a95e08b6755a9dc76af2f4751c7edd *tests/testthat/test-deconvolution.R
325f948bb5e45d21a5adb01fdc41b223 *tests/testthat/test-enrichment.R
0ebc0315a7642f4ccfd539a8614c6761 *tests/testthat/test-example-vista.R
56455c8a2fe9245c3c85a7e4992b476c *tests/testthat/test-exporting.R
35dc93fab52d36b94e968dac0ba2b942 *tests/testthat/test-expression-plots.R
d8c5e7b908e790a435f9d8ca5dc43467 *tests/testthat/test-foldchange-plots.R
df8829c8cc47a03abadcea58c6c1b660 *tests/testthat/test-foldchange-scatter.R
71fcc04f9dcc76f67a02e6d2c2e1763c *tests/testthat/test-heatmap-display.R
7140c442dd918e31ee74a7347646baf7 *tests/testthat/test-input-preparation.R
a68cafe49ae5ad641431b1650d3325a5 *tests/testthat/test-rowdata.R
c48d9291464b8d371fe5f5f33aa1365f *tests/testthat/test-validation.R
e5d14edc91bdd1597209817db72899b4 *tests/testthat/test-visualization-advanced.R
26ee9fc717d721a415e200eeed45b1ba *vignettes/VISTA-airway.Rmd
f32e02bfd360fa447571ea635e9b8724 *vignettes/guides/VISTA-chord.Rmd
22d37eb8504565cf1b67782117fed60a *vignettes/guides/VISTA-colors.Rmd
fc1603aa38dde78104d59deba1666e1c *vignettes/guides/VISTA-input-preparation.Rmd
f4588081a4c5a6037f4c0f940b462e94 *vignettes/guides/VISTA-raincloud.Rmd
f5fcb88d08d68ff8e8513ebefa2fd1c8 *vignettes/workflows/VISTA-code-economy.Rmd
a4c6b953af1856cbff167ea1a3bc9b50 *vignettes/workflows/VISTA-comparison.Rmd
15edfacc2e992f9e4daf96e0df65f533 *vignettes/workflows/VISTA-deconvolution.Rmd
