Files in jaspershen/metPath

Pathway analysis for metabolomics data

.DS_Store

.Rbuildignore

.gitignore

DESCRIPTION

LICENSE

LICENSE.md

NAMESPACE

NEWS

NEWS.md

NewFile.txt

R/attach.R R/check_data.R R/color.R R/data.R R/enrich_hmdb.R R/enrich_kegg2.R R/enrich_result_class.R R/hmdb_database.R R/kegg_database.R R/metPath_logo.R R/metpathClass.R R/pathway_database_class.R R/pca_analysis.R R/reactome_database.R R/tsne_analysis.R R/univariate_analysis.R R/utils.R R/zzz.R README.md

_pkgdown.yml

data/hmdbMS1Database.rda

data/hmdb_pathway.rda

data/keggMS1database.rda

data/kegg_hsa_pathway.rda

data/query_id_hmdb.rda

data/query_id_kegg.rda

demo_data/.DS_Store

demo_data/annotation_table

demo_data/annotation_table_neg

demo_data/annotation_table_pos

demo_data/fc_p_value

demo_data/head_result/hsa00010.png

demo_data/head_result/hsa00051.png

demo_data/head_result/hsa00052.png

demo_data/head_result/hsa00120.png

demo_data/head_result/hsa00140.png

demo_data/head_result/hsa00232.png

demo_data/head_result/hsa00330.png

demo_data/head_result/hsa00480.png

demo_data/head_result/hsa00524.png

demo_data/head_result/hsa00590.png

demo_data/head_result/hsa00591.png

demo_data/head_result/hsa00592.png

demo_data/head_result/hsa00600.png

demo_data/head_result/hsa00650.png

demo_data/head_result/hsa00740.png

demo_data/head_result/hsa00830.png

demo_data/head_result/hsa00860.png

demo_data/head_result/hsa00970.png

demo_data/head_result/hsa00980.png

demo_data/head_result/hsa01040.png

demo_data/head_result/hsa04070.png

demo_data/head_result/hsa04071.png

demo_data/head_result/hsa04080.png

demo_data/head_result/hsa04723.png

demo_data/head_result/hsa04726.png

demo_data/head_result/hsa04742.png

demo_data/head_result/hsa04913.png

demo_data/head_result/hsa04917.png

demo_data/head_result/hsa04923.png

demo_data/head_result/hsa04925.png

demo_data/head_result/hsa04927.png

demo_data/head_result/hsa04934.png

demo_data/head_result/hsa04973.png

demo_data/head_result/hsa04976.png

demo_data/head_result/hsa04978.png

demo_data/head_result/hsa05200.png

demo_data/head_result/hsa05215.png

demo_data/head_result/hsa05230.png

demo_data/isotope_neg

demo_data/isotope_pos

demo_data/kegg_hsa_compound_module

demo_data/kegg_hsa_compound_pathway

demo_data/kegg_ms1_database

demo_data/ms1.data.csv

demo_data/ms1_data_neg.csv

demo_data/ms1_data_pos.csv

demo_data/ms1_table.csv

demo_data/score_distributation.pdf

demo_data/score_distributation.png

demo_data/score_rule.pdf

demo_data/score_rule.png

demo_data/tail_result/hsa00030.png

demo_data/tail_result/hsa00040.png

demo_data/tail_result/hsa00051.png

demo_data/tail_result/hsa00052.png

demo_data/tail_result/hsa00100.png

demo_data/tail_result/hsa00120.png

demo_data/tail_result/hsa00130.png

demo_data/tail_result/hsa00140.png

demo_data/tail_result/hsa00232.png

demo_data/tail_result/hsa00280.png

demo_data/tail_result/hsa00524.png

demo_data/tail_result/hsa00561.png

demo_data/tail_result/hsa00562.png

demo_data/tail_result/hsa00590.png

demo_data/tail_result/hsa00591.png

demo_data/tail_result/hsa00630.png

demo_data/tail_result/hsa00640.png

demo_data/tail_result/hsa00650.png

demo_data/tail_result/hsa00670.png

demo_data/tail_result/hsa00740.png

demo_data/tail_result/hsa00830.png

demo_data/tail_result/hsa00860.png

demo_data/tail_result/hsa00910.png

demo_data/tail_result/hsa01040.png

demo_data/tail_result/hsa04066.png

demo_data/tail_result/hsa04070.png

demo_data/tail_result/hsa04080.png

demo_data/tail_result/hsa04727.png

demo_data/tail_result/hsa04913.png

demo_data/tail_result/hsa04917.png

demo_data/tail_result/hsa04922.png

demo_data/tail_result/hsa04971.png

demo_data/tail_result/hsa04972.png

demo_data/tail_result/hsa04973.png

demo_data/tail_result/hsa04976.png

demo_data/tail_result/hsa05215.png

demo_data/test.csv

demo_data/variable_info

docs/404.html

docs/LICENSE-text.html

docs/LICENSE.html

docs/articles/contact_us.html

docs/articles/contact_us_files/Proj4Leaflet-1.0.1/proj4-compressed.js

docs/articles/contact_us_files/Proj4Leaflet-1.0.1/proj4leaflet.js

docs/articles/contact_us_files/header-attrs-2.6/header-attrs.js

docs/articles/contact_us_files/htmlwidgets-1.5.3/htmlwidgets.js

docs/articles/contact_us_files/jquery-1.12.4/jquery.min.js

docs/articles/contact_us_files/leaflet-1.3.1/images/layers-2x.png

docs/articles/contact_us_files/leaflet-1.3.1/images/layers.png

docs/articles/contact_us_files/leaflet-1.3.1/images/marker-icon-2x.png

docs/articles/contact_us_files/leaflet-1.3.1/images/marker-icon.png

docs/articles/contact_us_files/leaflet-1.3.1/images/marker-shadow.png

docs/articles/contact_us_files/leaflet-1.3.1/leaflet.css

docs/articles/contact_us_files/leaflet-1.3.1/leaflet.js

docs/articles/contact_us_files/leaflet-binding-2.0.3/leaflet.js

docs/articles/contact_us_files/leafletfix-1.0.0/leafletfix.css

docs/articles/contact_us_files/rstudio_leaflet-1.3.1/images/1px.png

docs/articles/contact_us_files/rstudio_leaflet-1.3.1/rstudio_leaflet.css

docs/articles/hmdb_pathway_enrichment.html

docs/articles/hmdb_pathway_enrichment_files/figure-html/unnamed-chunk-10-1.png

docs/articles/hmdb_pathway_enrichment_files/figure-html/unnamed-chunk-8-1.png

docs/articles/hmdb_pathway_enrichment_files/figure-html/unnamed-chunk-9-1.png

docs/articles/hmdb_pathway_enrichment_files/header-attrs-2.6/header-attrs.js

docs/articles/index.html

docs/articles/kegg_pathway_enrichment.html

docs/articles/kegg_pathway_enrichment_files/figure-html/unnamed-chunk-10-1.png

docs/articles/kegg_pathway_enrichment_files/figure-html/unnamed-chunk-11-1.png

docs/articles/kegg_pathway_enrichment_files/figure-html/unnamed-chunk-9-1.png

docs/articles/kegg_pathway_enrichment_files/header-attrs-2.6/header-attrs.js

docs/articles/metPath.html

docs/articles/metPath_files/header-attrs-2.6/header-attrs.js

docs/articles/pathway_databaseRmd.html

docs/articles/pathway_databaseRmd_files/header-attrs-2.6/header-attrs.js

docs/articles/pathways_database.html

docs/articles/pathways_database_files/header-attrs-2.6/header-attrs.js

docs/authors.html

docs/bootstrap-toc.css

docs/bootstrap-toc.js

docs/docsearch.css

docs/docsearch.js

docs/docsearch.json

docs/index.html

docs/link.svg

docs/news/index.html

docs/pkgdown.css

docs/pkgdown.js

docs/pkgdown.yml

docs/reference/Rplot001.png

docs/reference/calculate_redundance.html

docs/reference/creatMetPathObject.html

docs/reference/doPCA.html

docs/reference/dotsne.html

docs/reference/enrichPathway.html

docs/reference/enrich_bar_plot.html

docs/reference/enrich_hmdb.html

docs/reference/enrich_kegg.html

docs/reference/enrich_network.html

docs/reference/enrich_pathway.html

docs/reference/enrich_result_class-class.html

docs/reference/enrich_scatter_plot.html

docs/reference/figures/metpath_logo.png

docs/reference/filter_pathway.html

docs/reference/get_hmdb_compound.html

docs/reference/get_hmdb_pathway.html

docs/reference/get_kegg_compound.html

docs/reference/get_kegg_pathway.html

docs/reference/get_pathway_class.html

docs/reference/group_peaks_rt.html

docs/reference/hmdbMS1Database.html

docs/reference/hmdb_pathway.html

docs/reference/index.html

docs/reference/keggMS1database.html

docs/reference/kegg_hsa_pathway.html

docs/reference/metPath.html

docs/reference/metPathClass-class.html

docs/reference/metPath_logo.html

docs/reference/metPath_packages.html

docs/reference/pathway_class-class.html

docs/reference/pathway_database_class-class.html

docs/reference/query_id_hmdb.html

docs/reference/query_id_kegg.html

docs/reference/score_peak_group.html

docs/reference/set_label.html

docs/reference/setlabel.html

docs/sitemap.xml

example/batch.xlsx

example/batch1.data.csv

example/batch2.data.csv

example/msDatabase_rplc0.0.2

example/sample_info.csv

example/~$batch.xlsx

man/.DS_Store

man/enrich_bar_plot.Rd man/enrich_hmdb.Rd man/enrich_kegg.Rd man/enrich_network.Rd man/enrich_result_class-class.Rd man/enrich_scatter_plot.Rd

man/figures/metpath_logo.png

man/filter_pathway.Rd man/get_hmdb_compound.Rd man/get_hmdb_pathway.Rd man/get_kegg_compound.Rd man/get_kegg_pathway.Rd man/get_pathway_class.Rd man/hmdbMS1Database.Rd man/hmdb_pathway.Rd man/keggMS1database.Rd man/kegg_hsa_pathway.Rd man/metPath_logo.Rd man/metPath_packages.Rd man/pathway_database_class-class.Rd man/query_id_hmdb.Rd man/query_id_kegg.Rd man/set_label.Rd

metPath.Rproj

summary/metPath.pptx

vignettes/contact_us.Rmd vignettes/hmdb_pathway_enrichment.Rmd vignettes/kegg_pathway_enrichment.Rmd vignettes/metPath.Rmd vignettes/pathways_database.Rmd

jaspershen/metPath documentation built on March 14, 2021, 12:07 a.m.