dd39610bfb05c6c43102835ce4ccfe48 *DESCRIPTION
d1fbaa5ec611772003cdd008fa92a82b *NAMESPACE
0401dc9469fa7a8dc46d4e595d817cfc *NEWS
4baf7e87f0b5b56af2798984d7880429 *R/allClasses.R
baa6dfcc26a43159d758050e452176c1 *R/biomarker.R
7a879624a206ec73a38eccedb99ec489 *R/differentialAnalysis.R
6d1cb9402ed3efa5e3f76232fd99290c *R/pathoStat.R
2527edc9716708b363bca310f7f94b15 *R/taxonomy.R
43e8594be066aa10ab31c4844ebd480d *R/utils.R
1b1ef9e398809a90c7766327b45ada23 *R/visualization.R
4208a29c12e9099f816668abdf569834 *README.md
7aca8fdb1c1ac102bcad9888b95eac6b *build/vignette.rds
114d54e784880d31111784869c8dcfe4 *data/asthma_pstat_data.rda
30c80b9013edf020846584f73f5868b1 *data/pstat_data.rda
fe1a484fcdd52cdab201874764a4fd67 *data/pstat_data_2_L1.rda
0b5e4e0d9b9c78b7b6b38bb9cac98162 *data/pstat_data_2_L2.rda
9966bfed8088890ef87595f044606b8c *inst/doc/PathoStat-vignette.R
90819198d60b1122458e63b0f33c6416 *inst/doc/PathoStat-vignette.Rmd
fe39e26d0df127296708c1aa69f0cc5f *inst/doc/PathoStat-vignette.html
d32268fb68efe58e7558c83522412f6e *inst/example/data/Sample_01_1-sam-report.tsv
5cf53a7bc65524f57d114217a9dc1865 *inst/example/data/Sample_01_2-sam-report.tsv
41d8d6966447dfb1ec11b7e18c14bc80 *inst/example/data/Sample_01_3-sam-report.tsv
ff5da6f140870979875ac96782e79139 *inst/example/data/Sample_02_1-sam-report.tsv
c390d4dca9122ba210a6c96382c34646 *inst/example/data/Sample_02_2-sam-report.tsv
7f20258f9971477e77a8fb3f04d8d8c9 *inst/example/data/Sample_02_3-sam-report.tsv
a98a2ac6574cad5d9b7b92be786758a1 *inst/example/data/count_example/annotation_example.csv
48d6c45a85044c95e0df631512c8d0cc *inst/example/data/count_example/count_example.csv
a8e08297eb9e5c0c5d96387fe7126990 *inst/example/data/count_example/taxonomy_table.csv
d32268fb68efe58e7558c83522412f6e *inst/example/data/pathoscope_example/Sample_01_1-sam-report.tsv
5cf53a7bc65524f57d114217a9dc1865 *inst/example/data/pathoscope_example/Sample_01_2-sam-report.tsv
41d8d6966447dfb1ec11b7e18c14bc80 *inst/example/data/pathoscope_example/Sample_01_3-sam-report.tsv
ff5da6f140870979875ac96782e79139 *inst/example/data/pathoscope_example/Sample_02_1-sam-report.tsv
c390d4dca9122ba210a6c96382c34646 *inst/example/data/pathoscope_example/Sample_02_2-sam-report.tsv
7f20258f9971477e77a8fb3f04d8d8c9 *inst/example/data/pathoscope_example/Sample_02_3-sam-report.tsv
37d5372f780a48dab71cb555e7f2adf2 *inst/example/data/pathoscope_example/sample_data.tsv
682edb42f51e470ca1a1f28166df91a2 *inst/example/data/sample_data.tsv
ebbc52ff4428fcaaff87dc46303b1e02 *inst/example/pathostat_pipeline.R
b2fe1d9686b3305f28fd5c868e0b8f2f *inst/shiny/PathoStat/app.R
77b2fd7a4081f0ed9f5395d83dd394e3 *inst/shiny/PathoStat/server/server_01_upload.R
13cd22a01ba755e927997c227c4eb8c6 *inst/shiny/PathoStat/server/server_02_filter.R
2fa399d7d698287459af0acd08f4157e *inst/shiny/PathoStat/server/server_03_ra.R
1a5c8dcaa1ae0769af36ac8df88ac3a7 *inst/shiny/PathoStat/server/server_04_diversity.R
592996cc39b14874f2cd5b054e37d232 *inst/shiny/PathoStat/server/server_05_dimreduction.R
8bb33532ed03c49f4b5b091402974228 *inst/shiny/PathoStat/server/server_06_differential.R
4060f8500e1dc19de8b28233df8623b7 *inst/shiny/PathoStat/server/server_07_biomarker.R
0a6003931b2b4c64260da7ddc7caadd4 *inst/shiny/PathoStat/ui/ui_01_upload.R
5471aa574da61bc59725fd2df72d0911 *inst/shiny/PathoStat/ui/ui_02_filter.R
14a45a9cc295843ade06602197873f3d *inst/shiny/PathoStat/ui/ui_03_ra.R
abaa99660be655eaedda48c0def91817 *inst/shiny/PathoStat/ui/ui_04_diversity.R
07ddc4e20b0b401794ebc9ff78aba3d9 *inst/shiny/PathoStat/ui/ui_05_dimreduction.R
d86a5d28bcc5d675d7ee7b5436515679 *inst/shiny/PathoStat/ui/ui_06_differential.R
9fb546151ee067d29bd5ab9e9b11a44d *inst/shiny/PathoStat/ui/ui_07_biomarker.R
4f15876e761b3a43e9e285b39633b731 *inst/shiny/PathoStat/utils/helpers.R
033c64374aea6d78166301adafc154cd *inst/shiny/PathoStat/utils/old_server_stuff.R
c35638cc8407632731c558ac34a1e28f *inst/shiny/PathoStat/utils/old_ui_stuff.R
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ca784662426d22bce1b97c4758cd2712 *inst/shiny/PathoStat/www/bu_bioinfo_logo.png
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92a6e22838944587a7e0cf722dbccd97 *inst/shiny/PathoStat/www/count_table_example.png
814e2c0abf6708832b18e69738c6eb08 *man/Bootstrap_LOOCV_LR_AUC.Rd
d99efa1884e3c1c2cf8333821199081b *man/Chisq_Test_Pam.Rd
17fea2532e977f9cae43fdde11e1386e *man/Fisher_Test_Pam.Rd
ca64fbd67b17060d7b4d40cc4c839024 *man/GET_PAM.Rd
32b4aabf0977d2aebb79f872b199dfbc *man/LOOAUC_simple_multiple_noplot_one_df.Rd
00928950077b25c30e6de751c6003e58 *man/LOOAUC_simple_multiple_one_df.Rd
d4084ae58890b272adf1398b059e60d9 *man/PathoStat-class.Rd
2cde91eabeb59e350ae3431465ea5005 *man/TranslateIdToTaxLevel.Rd
c299eade071fc635782d1a6b9c4c09c9 *man/Wilcox_Test_df.Rd
09a2c5277c3129bf55e1e5b471ac49e8 *man/findRAfromCount.Rd
41c282e46d2e97be57c70010e6c25122 *man/findTaxonMat.Rd
9065b3548bf3067f52e482f26f8dec1d *man/findTaxonomy.Rd
fb78e01937d83bdc947129cb6baa7a50 *man/findTaxonomy300.Rd
a400e5a4754f498653761b5d4fee1568 *man/formatTaxTable.Rd
927ad9d8423b83a225165d7e2684aa46 *man/getShinyInput.Rd
2c822f2c07a55d45cde55e9ec0ded10c *man/getShinyInputCombat.Rd
57979631f20cd031479b45c74f77e501 *man/getShinyInputOrig.Rd
4f46e2e301aecb6d7c69e03bb777032f *man/getSignatureFromMultipleGlmnet.Rd
228f14d4320e751f30f8ba2735a0f877 *man/grepTid.Rd
59539fd28578c2bf6226d8c2746ef6e3 *man/loadPathoscopeReports.Rd
b04c9d0493cae014d9b420f781a8e98b *man/loadPstat.Rd
8d8e48a510c4ff0bb52be7ff362b4eae *man/log2CPM.Rd
05d356d4af3c2dbc033ec5e287e8b0cd *man/percent.Rd
3e333667e12fcc2053f56105f91f5c0e *man/phyloseq_to_edgeR.Rd
4167293bf03a5ce0202e2e7bcd73c36d *man/plotPCAPlotly.Rd
02c96ae2535f59da8af1e94818c12537 *man/plotPCoAPlotly.Rd
e0499ef172a9d5b4ae7dcaf0cfdf6b39 *man/pstat_data.Rd
6dc805dc12a0bff81dcec3e4c94352d0 *man/readPathoscopeData.Rd
bb25f29f6f46ad36c9120d34adefdf0e *man/runPathoStat.Rd
05b8242d74495fa4eee431791ec9cd62 *man/savePstat.Rd
9d8ae1ce9b8f9eb4c19edab530e0bedc *man/setShinyInput.Rd
fa402d91a3b5c9435360bae5d0e6ef3d *man/setShinyInputCombat.Rd
d8761757df3c004710441cb8f3915a2a *man/setShinyInputOrig.Rd
0cef2c0940c127d37cdca49de8c02786 *man/summarizeTable.Rd
f3bffceeb4ddc6de5ffbc26a676901f2 *tests/testthat.R
fad4cbcb146f592ed0ae905fd670a347 *tests/testthat/test_try.R
90819198d60b1122458e63b0f33c6416 *vignettes/PathoStat-vignette.Rmd
