Files in CogDisResLab/KRSA
KRSA: Kinome Random Sampling Analyzer
.Rbuildignore
.Rprofile
.bumpversion.cfg
.github/.gitignore
.github/workflows/github_release.yml
.github/workflows/pkgdown.yml
.github/workflows/rworkflows.yml
.github/workflows/test-coverage.yml
.gitignore
.lintr
.pre-commit-config.yaml
DESCRIPTION
KRSA.Rproj
LICENSE
LICENSE.md
NAMESPACE
R/KRSA_package.R
R/data.R
R/enrichr_lib_call.R
R/krsa.R
R/krsa_ball_model.R
R/krsa_ce_output_kinases.R
R/krsa_ce_output_peptides.R
R/krsa_coverage_plot.R
R/krsa_curve_plot.R
R/krsa_cv_plot.R
R/krsa_enrichr.R
R/krsa_enrichr_plot.R
R/krsa_extractEndPoint.R
R/krsa_extractEndPointMaxExp.R
R/krsa_filter_lowPeps.R
R/krsa_filter_nonLinear.R
R/krsa_filter_ref_pep.R
R/krsa_get_diff.R
R/krsa_get_diff_byChip.R
R/krsa_group_diff.R
R/krsa_heatmap.R
R/krsa_heatmap_grouped.R
R/krsa_histogram_plot.R
R/krsa_qc_steps.R
R/krsa_quick_filter.R
R/krsa_read.R
R/krsa_reverse_krsa_plot.R
R/krsa_sampling.R
R/krsa_scaleModel.R
R/krsa_show_peptides.R
R/krsa_top_hits.R
R/krsa_violin_plot.R
R/krsa_violin_plot_grouped.R
R/krsa_waterfall.R
R/krsa_zscores_plot.R
R/parse_BN_crosstabFile.R
R/utils.R
README.Rmd
README.md
_pkgdown.yml
codemeta.json
data-raw/FinEdges_Final_FF.rds
data-raw/FinNodes_Final_FF.rds
data-raw/KRSA_Mapping_PTK_PamChip_86402_v1.csv
data-raw/KRSA_Mapping_STK_PamChip_87102_v1.csv
data-raw/KRSA_coverage_PTK_PamChip_86402_v1.rds
data-raw/KRSA_coverage_STK_PamChip_87102_v1.rds
data-raw/PTK-86402-Array-Layout.txt
data-raw/STK-87102-Array-Layout.txt
data-raw/data_process.R
data-raw/uka_pep2kinase_PTK.csv
data-raw/uka_pep2kinase_STK.csv
data/KRSA_Mapping_PTK_PamChip_86402_v1.rda
data/KRSA_Mapping_STK_PamChip_87102_v1.rda
data/KRSA_coverage_PTK_PamChip_86402_v1.rda
data/KRSA_coverage_STK_PamChip_87102_v1.rda
data/KRSA_coverage_STK_PamChip_87102_v2.rda
data/KRSA_layout_PTK_PamChip_86402_v1.rda
data/KRSA_layout_STK_PamChip_87102_v1.rda
data/KRSA_uka_mapping_PTK_PamChip_86402_v1.rda
data/KRSA_uka_mapping_STK_PamChip_87102_v1.rda
data/ballModel_edges.rda
data/ballModel_nodes.rda
data/ptk_pamchip_86402_mapping.rda
data/stk_pamchip_87102_mapping.rda
inst/WORDLIST
inst/extdata/example_Median_SigmBg.txt
inst/extdata/example_Signal_Saturation.txt
inst/rmarkdown/templates/krsa-report/skeleton/images/pamgene_detectionFig.png
inst/rmarkdown/templates/krsa-report/skeleton/images/pamgene_workflow.png
inst/rmarkdown/templates/krsa-report/skeleton/images/ut_collegeofmedicine-logo.png
inst/rmarkdown/templates/krsa-report/skeleton/skeleton.Rmd
inst/rmarkdown/templates/krsa-report/template.yaml
man/KRSA_Mapping_PTK_PamChip_86402_v1.Rd
man/KRSA_Mapping_STK_PamChip_87102_v1.Rd
man/KRSA_coverage_PTK_PamChip_86402_v1.Rd
man/KRSA_coverage_STK_PamChip_87102_v1.Rd
man/KRSA_coverage_STK_PamChip_87102_v2.Rd
man/ballModel_edges.Rd
man/ballModel_nodes.Rd
man/enrichr_lib_call.Rd
man/figures/anim_figure.R
man/figures/curves.gif
man/figures/heatmap.jpg
man/figures/hits.jpg
man/figures/logo.png
man/figures/networks.jpg
man/figures/rand_explain_new.png
man/figures/rand_sampling_DMPK.gif
man/figures/rand_sampling_DMPK_1.png
man/figures/rand_sampling_DMPK_2.png
man/figures/workflow.png
man/krsa.Rd
man/krsa_ball_model.Rd
man/krsa_ce_output_kinases.Rd
man/krsa_ce_output_peptides.Rd
man/krsa_coverage_plot.Rd
man/krsa_curve_plot.Rd
man/krsa_cv_plot.Rd
man/krsa_enrichr.Rd
man/krsa_enrichr_plot.Rd
man/krsa_extractEndPoint.Rd
man/krsa_extractEndPointMaxExp.Rd
man/krsa_filter_lowPeps.Rd
man/krsa_filter_nonLinear.Rd
man/krsa_filter_ref_pep.Rd
man/krsa_get_diff.Rd
man/krsa_get_diff_byChip.Rd
man/krsa_group_diff.Rd
man/krsa_heatmap.Rd
man/krsa_heatmap_grouped.Rd
man/krsa_histogram_plot.Rd
man/krsa_qc_steps.Rd
man/krsa_quick_filter.Rd
man/krsa_read.Rd
man/krsa_reverse_krsa_plot.Rd
man/krsa_sampling.Rd
man/krsa_scaleModel.Rd
man/krsa_show_peptides.Rd
man/krsa_top_hits.Rd
man/krsa_violin_plot.Rd
man/krsa_violin_plot_grouped.Rd
man/krsa_waterfall.Rd
man/krsa_zscores_plot.Rd
man/parse_BN_crosstabFile.Rd
man/ptk_pamchip_86402_mapping.Rd
man/reexports.Rd
man/stk_pamchip_87102_mapping.Rd
pkgdown/favicon/apple-touch-icon-120x120.png
pkgdown/favicon/apple-touch-icon-152x152.png
pkgdown/favicon/apple-touch-icon-180x180.png
pkgdown/favicon/apple-touch-icon-60x60.png
pkgdown/favicon/apple-touch-icon-76x76.png
pkgdown/favicon/apple-touch-icon.png
pkgdown/favicon/favicon-16x16.png
pkgdown/favicon/favicon-32x32.png
pkgdown/favicon/favicon.ico
renovate.json
renv.lock
renv/.gitignore
renv/activate.R
renv/settings.dcf
renv/settings.json
utilities/bump-version.sh
utilities/rename-package.R
utilities/update-changelog.sh
