2a35f2576444fa243dddd84ceddfad5e *DESCRIPTION
d8ddb08d938c6f37c96870ef49f2386b *LICENSE
9292b9fb818bc531e4804380e170fbe3 *NAMESPACE
fb8e3e43ceacb0096bdfe2e4ae051a6b *NEWS.md
00edc597778669c4b2039b041d35be38 *R/Deregulogram_helpers.R
505fa3ad35b6bff08a6422936f278e6c *R/MzTab_reader.R
b75de51290020b4f354157e9ffcddade *R/ProteinBatcher-package.R
20f35eb83b7bce79c58370e9f267f057 *R/Step1_Filter_Imputation.R
7d22e2606d8e623547fad2fde3eca02e *R/Step2_DE_limma.R
71935aaea001f1ef03699d24e6827ba4 *R/Step3_Organize_Output.R
ad1a0996772d9c605b18e51d50df3c5b *R/Step4_Volcano.R
727980c2aa0cfb722ab7076c39bbebc1 *R/Step5_Deregulogram.R
ebb94c345608eb808da72964a4c48875 *R/Step6_Wrapper_Workflow.R
944ba7b89395f4ae64b1bb3bd126a719 *R/Volcano_helpers.R
38003543defee0848f83f4835659965c *R/Wrapper_Imputation_helpers.R
1ee947a5396fa5b879b1759bb3b9ef90 *R/globals.R
30a0b08bd615ca818775381b387fdd8b *R/test_limma_helpers.R
5a32dd6a4865b6e33011d4e673d9ffbd *README.md
3427c3058d86d35e647faea229dd91de *build/vignette.rds
f2f69cdedb956b0e042a8309b2530bbe *inst/doc/Vignette.R
c4e92f81f0f0c08c44c6bbba0ed86c7c *inst/doc/Vignette.Rmd
b9e4aed986378a43d3fa0cbc8baa86b9 *inst/doc/Vignette.html
4ffc2387f2593b4c823faade9fecf8a2 *inst/extdata/2024MK017_HaCaT_Stimulation_1to24_Astral_report.pg_matrix.tsv
ce9a55a099a67e591b9f15f5b887c977 *inst/extdata/HaCaT_CommonEffect_COMBO_vs_NoTreated.pdf
e0e93579efffd951d17815d8f02cead8 *inst/extdata/HaCaT_CommonEffect_IL13_vs_NoTreated.pdf
87bca66f8debb123fd4514789e5bd41c *inst/extdata/HaCaT_CommonEffect_IL13_vs_NoTreated.png
e97b3c6c7081207f0901bb174912631b *inst/extdata/HaCaT_CommonEffect_IL22_vs_NoTreated.pdf
d53d29fdcbdc0ae5a1da513a97343227 *inst/extdata/HaCaT_Deregulogram_COMBO_vs_NoTreated_batch.pdf
097042fde53ce105dd0e46f0e2c6dd48 *inst/extdata/HaCaT_Deregulogram_IL13_vs_NoTreated_batch.pdf
cb1f6d4ea3250d79401897503830e181 *inst/extdata/HaCaT_Deregulogram_IL13_vs_NoTreated_batch.png
eea8ae4914c216d0524f1e873c6feaa3 *inst/extdata/HaCaT_Deregulogram_IL22_vs_NoTreated_batch.pdf
bf7905b4b468329a9e91000f06f8fd58 *inst/extdata/HaCaT_Imputation_step.xlsx
4da17adf85440c61cc5fc9c35ddcdc8c *inst/extdata/HaCaT_InteractionEffect_COMBO.batchday2.pdf
f7193629aa6e704a5c6803ab7d628597 *inst/extdata/HaCaT_InteractionEffect_IL13.batchday2.pdf
9c3b8ef26c7990506ecd00976363facc *inst/extdata/HaCaT_InteractionEffect_IL13.batchday2.png
923fbc264dcf0e5031f5b75878c12a6f *inst/extdata/HaCaT_InteractionEffect_IL22.batchday2.pdf
677f3bd3f13548f3702a588d72667877 *inst/extdata/HaCaT_MainEffect_AllProteins_COMBO_vs_NoTreated.pdf
b86523b58abfc52825567862e884055a *inst/extdata/HaCaT_MainEffect_AllProteins_IL13_vs_NoTreated.pdf
9888fbad2ed67d4c425760060c06be71 *inst/extdata/HaCaT_MainEffect_AllProteins_IL13_vs_NoTreated.png
d0d255e51faf56bc915597ff9f993637 *inst/extdata/HaCaT_MainEffect_AllProteins_IL22_vs_NoTreated.pdf
aae94b6dae5b7550720d34103e9285c9 *inst/extdata/HaCaT_filtered_out_proteins.xlsx
fa3ba1f40371ed67c2a6c413289eb2a5 *inst/extdata/annotation_HaCaT.tsv
844bb3810880027d0d60d8e5487115d7 *inst/extdata/example_contrasts.txt
6699c626072633e29303afcc181d994d *inst/extdata/example_pg_matrix.mzTab
02831e53333c08cca9af27d68d524097 *inst/extdata/experiment_annotation_Astral.txt
662dccc48b230024bd047876a2d21baa *man/ProteinBatcher-package.Rd
7b7e5dd35e219ff88535c7951a5875d8 *man/dot-pp_export_volcano_tables.Rd
972f8a4389251b4ddc2be8db1020f2a9 *man/dot-pp_infer_interaction_factor.Rd
e86acb5b823670ea6359a8d08f7930fa *man/dot-pp_organize_effects.Rd
09f957c85de34bf0bf171e88419b5407 *man/filter_se_missing.Rd
41d1733bc6bffe7b227d5fc36a486728 *man/impute_se.Rd
32c91c0bf320696bf087ec334396305a *man/plot_deregulogram.Rd
563a796267d94fdc9b75281389f99a18 *man/plot_volcano_customized.Rd
67c969e95e90c1fba97844ccd82d9699 *man/run_proteomics_pipeline.Rd
e35a311e366fab24777b7e97703d95e8 *man/test_limma_customized.Rd
9a5fcdd6e19bba8efc3fe2de28db1779 *tests/testthat.R
494d4d93717003f326817252873f19ec *tests/testthat/test-.pp_export_volcano_tables.R
39e8ceef671e2dc79e0d6f44d28f8e55 *tests/testthat/test-.pp_organize_effects.R
2529233d65bb8be5aa779133c70a0aec *tests/testthat/test-block_var.R
db69bb8c97303171f8e42fd608e6a9b5 *tests/testthat/test-filter_se_missing.R
d1766aae596de49fc2bb70ad22a8be63 *tests/testthat/test-impute_se.R
f72b4ce7b5edbfac9ae05c1ca2ebb95d *tests/testthat/test-optional_columns.R
0b284c3a98511602f3aff43a2f6ea1bd *tests/testthat/test-pipeline_plots.R
87ef16d20853e9f9e8a519a462b7b5c0 *tests/testthat/test-plot_deregulogram.R
a91b55282f1758a510d33514afe88c96 *tests/testthat/test-plot_volcano_customized.R
a51f89d6d3049f301ca443220ea5b9b6 *tests/testthat/test-readQuantTable-mzTab.R
225e3812b897786befc574f805c96dc2 *tests/testthat/test-readQuantTable.R
360872eacafeb7765e7c2e37d2fbc39c *tests/testthat/test-run_proteomics_pipeline.R
c13376ca1855d38529383e0304eba143 *tests/testthat/test-test_limma_customized.R
23e7e2b1fa0482cab663e874bfdf0623 *tests/testthat/test-wrapper_imputation_helpers.R
c4e92f81f0f0c08c44c6bbba0ed86c7c *vignettes/Vignette.Rmd
