Files in fcampelo/epitopes
Processing and Feature Extraction for Epitope Data
.DS_Store
.Rbuildignore
.gitattributes
.github/.gitignore
.github/workflows/R-CMD-check.yaml
.gitignore
DESCRIPTION
NAMESPACE
NEWS.md
R/calc_features.R
R/calc_performance.R
R/extract_windows.R
R/feat_calc.R
R/filter_epitopes.R
R/fit_model.R
R/get_IEDB.R
R/get_LBCE.R
R/get_aa_codes.R
R/get_feature_functions.R
R/get_proteins.R
R/get_taxonomy.R
R/label_proteins.R
R/make_OrgSpec_datasets.R
R/make_heterogeneous_dataset.R
R/make_proteins_dataset.R
R/make_window_df.R
R/onAttach.R
R/prepare_join_df.R
R/process_individual_epitope_B.R
R/process_xml_file.R
R/read_abcpred.R
R/read_bepipred2.R
R/read_ibceel.R
R/read_lbtope.R
R/read_svmtrip.R
R/smooth_predictions.R
R/split_epitope_data.R
R/utils.R
R/zzz_deprecated.R
R/zzz_old_versions.R
README.md
_pkgdown.yml
cran-comments.md
data/00_epitopes_20220128.rds
data/00_proteins_20220129.rds
data/00_taxonomy_20220129.rds
doc/Usage-example.R
doc/Usage-example.Rmd
doc/Usage-example.html
docs/.DS_Store
docs/404.html
docs/articles/ROC.png
docs/articles/Usage-example.html
docs/articles/Usage-example_files/figure-html/unnamed-chunk-10-1.png
docs/articles/Usage-example_files/figure-html/unnamed-chunk-8-1.png
docs/articles/Usage-example_files/header-attrs-2.6/header-attrs.js
docs/articles/index.html
docs/articles/preds.png
docs/authors.html
docs/bootstrap-toc.css
docs/bootstrap-toc.js
docs/docsearch.css
docs/docsearch.js
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/calc_features.html
docs/reference/calc_performance.html
docs/reference/filter_epitopes.html
docs/reference/fit_model.html
docs/reference/get_IEDB.html
docs/reference/get_LBCE.html
docs/reference/get_feature_functions.html
docs/reference/get_proteins.html
docs/reference/get_taxonomy.html
docs/reference/index.html
docs/reference/label_proteins.html
docs/reference/make_OrgSpec_datasets.html
docs/reference/make_heterogeneous_dataset.html
docs/reference/make_proteins_dataset.html
docs/reference/make_window_df.html
docs/reference/prepare_join_df.html
docs/reference/read_abcpred.html
docs/reference/read_bepipred2.html
docs/reference/read_ibceel.html
docs/reference/read_lbtope.html
docs/reference/read_svmtrip.html
docs/reference/smooth_predictions.html
docs/reference/split_epitope_data.html
docs/sitemap.xml
epitopes.Rproj
inst/.DS_Store
inst/extdata/.DS_Store
inst/extdata/AAdescriptors.txt
inst/extdata/AAdescriptors.xlsx
inst/extdata/amino_acid_propensity.csv
inst/extdata/amino_acid_propensity.rds
inst/extdata/xml_examples/271.xml
inst/extdata/xml_examples/272.xml
inst/extdata/xml_examples/274.xml
inst/extdata/xml_examples/275.xml
inst/extdata/xml_examples/276.xml
inst/extdata/xml_examples/277.xml
inst/extdata/xml_examples/278.xml
inst/extdata/xml_examples/279.xml
inst/extdata/xml_examples/280.xml
inst/extdata/xml_examples/281.xml
inst/extdata/xml_examples/283.xml
inst/extdata/xml_examples/284.xml
inst/extdata/xml_examples/285.xml
inst/extdata/xml_examples/286.xml
inst/extdata/xml_examples/287.xml
inst/extdata/xml_examples/290.xml
inst/extdata/xml_examples/294.xml
inst/extdata/xml_examples/297.xml
inst/extdata/xml_examples/298.xml
inst/extdata/xml_examples/299.xml
inst/extdata/xml_examples/3.xml
inst/extdata/xml_examples/302.xml
inst/extdata/xml_examples/303.xml
inst/extdata/xml_examples/304.xml
inst/extdata/xml_examples/307.xml
inst/extdata/xml_examples/308.xml
inst/extdata/xml_examples/309.xml
inst/extdata/xml_examples/310.xml
inst/extdata/xml_examples/311.xml
inst/extdata/xml_examples/312.xml
inst/extdata/xml_examples/313.xml
inst/extdata/xml_examples/315.xml
inst/extdata/xml_examples/316.xml
inst/extdata/xml_examples/317.xml
inst/extdata/xml_examples/318.xml
inst/extdata/xml_examples/319.xml
inst/extdata/xml_examples/320.xml
man/calc_features.Rd
man/calc_performance.Rd
man/filter_epitopes.Rd
man/fit_model.Rd
man/get_IEDB.Rd
man/get_LBCE.Rd
man/get_feature_functions.Rd
man/get_proteins.Rd
man/get_taxonomy.Rd
man/label_proteins.Rd
man/make_OrgSpec_datasets.Rd
man/make_heterogeneous_dataset.Rd
man/make_proteins_dataset.Rd
man/make_window_df.Rd
man/prepare_join_df.Rd
man/read_abcpred.Rd
man/read_bepipred2.Rd
man/read_ibceel.Rd
man/read_lbtope.Rd
man/read_svmtrip.Rd
man/smooth_predictions.Rd
man/split_epitope_data.Rd
vignettes/.gitignore
vignettes/ROC.png
vignettes/Usage-example.Rmd
vignettes/preds.png
