Files in pepr
Reading Portable Encapsulated Projects
MD5
NEWS.md
README.md
NAMESPACE
DESCRIPTION
LICENSE
R/config.R
R/pepr.R
R/constants.R
R/project.R
R/utils.R
inst/CITATION
inst/doc/gettingStarted.Rmd
inst/doc/feature1_constantAttributes.Rmd
inst/doc/feature1_constantAttributes.html
inst/doc/feature2_impliedAttributes.html
inst/doc/feature4_derivedImpliedAttributes.html
inst/doc/feature5_sampleSubtable.Rmd
inst/doc/feature4_derivedImpliedAttributes.R
inst/doc/feature6_amendments.html
inst/doc/gettingStarted.html
inst/doc/feature4_derivedImpliedAttributes.Rmd
inst/doc/feature6_amendments.Rmd
inst/doc/feature3_derivedAttributes.html
inst/doc/feature2_impliedAttributes.R
inst/doc/feature5_sampleSubtable.R
inst/doc/gettingStarted.R
inst/doc/feature5_sampleSubtable.html
inst/doc/feature1_constantAttributes.R
inst/doc/feature6_amendments.R
inst/doc/feature3_derivedAttributes.R
inst/doc/feature3_derivedAttributes.Rmd
inst/doc/feature2_impliedAttributes.Rmd
inst/extdata/example_peps-master/subannotation.ipynb
inst/extdata/example_peps-master/README.md
inst/extdata/example_peps-master/example_noname/project_config_noname.yaml
inst/extdata/example_peps-master/example_noname/project_config.yaml
inst/extdata/example_peps-master/example_noname/sample_table.csv
inst/extdata/example_peps-master/example_custom_index/project_config2.yaml
inst/extdata/example_peps-master/example_custom_index/project_config.yaml
inst/extdata/example_peps-master/example_custom_index/sample_table.csv
inst/extdata/example_peps-master/example_piface/output_schema_sample.yaml
inst/extdata/example_peps-master/example_piface/readData.R
inst/extdata/example_peps-master/example_piface/pipeline_interface2_project.yaml
inst/extdata/example_peps-master/example_piface/resources-sample.tsv
inst/extdata/example_peps-master/example_piface/annotation_sheet.csv
inst/extdata/example_peps-master/example_piface/pipeline_interface1_sample.yaml
inst/extdata/example_peps-master/example_piface/pipeline_interface2_sample.yaml
inst/extdata/example_peps-master/example_piface/project_config.yaml
inst/extdata/example_peps-master/example_piface/output_schema_project.yaml
inst/extdata/example_peps-master/example_piface/pipeline_interface1_project.yaml
inst/extdata/example_peps-master/example_piface/resources-project.tsv
inst/extdata/example_peps-master/example_piface/output_schema.yaml
inst/extdata/example_peps-master/example_subtable2/subsample_table.csv
inst/extdata/example_peps-master/example_subtable2/project_config.yaml
inst/extdata/example_peps-master/example_subtable2/sample_table.csv
inst/extdata/example_peps-master/example_subtable5/subsample_table.csv
inst/extdata/example_peps-master/example_subtable5/project_config.yaml
inst/extdata/example_peps-master/example_subtable5/sample_table.csv
inst/extdata/example_peps-master/example_derive/sample_table_pre.csv
inst/extdata/example_peps-master/example_derive/project_config.yaml
inst/extdata/example_peps-master/example_derive/sample_table.csv
inst/extdata/example_peps-master/example_nextflow_samplesheet/sample_table.csv
inst/extdata/example_peps-master/example_imply/sample_table_pre.csv
inst/extdata/example_peps-master/example_imply/project_config.yaml
inst/extdata/example_peps-master/example_imply/sample_table.csv
inst/extdata/example_peps-master/example_remove/project_config.yaml
inst/extdata/example_peps-master/example_remove/sample_table.csv
inst/extdata/example_peps-master/example_imports/project_config1.yaml
inst/extdata/example_peps-master/example_imports/project_config.yaml
inst/extdata/example_peps-master/example_imports/sample_table.csv
inst/extdata/example_peps-master/example_basic/project_config.yaml
inst/extdata/example_peps-master/example_basic/sample_table.csv
inst/extdata/example_peps-master/example_append/sample_table_pre.csv
inst/extdata/example_peps-master/example_append/project_config.yaml
inst/extdata/example_peps-master/example_append/sample_table.csv
inst/extdata/example_peps-master/example_project_as_dictionary/project.json
inst/extdata/example_peps-master/example_imports2/project_config.yaml
inst/extdata/example_peps-master/example_imports2/path_config.yaml
inst/extdata/example_peps-master/example_imports2/sample_table.csv
inst/extdata/example_peps-master/example_nextflow_config/samplesheet.csv
inst/extdata/example_peps-master/example_nextflow_config/project_config.yaml
inst/extdata/example_peps-master/example_derive_imply/sample_table_pre.csv
inst/extdata/example_peps-master/example_derive_imply/project_config.yaml
inst/extdata/example_peps-master/example_derive_imply/sample_table.csv
inst/extdata/example_peps-master/data/frog3_data.txt
inst/extdata/example_peps-master/data/frog1a_data2.txt
inst/extdata/example_peps-master/data/frog1a_data.txt
inst/extdata/example_peps-master/data/frog1c_data.txt
inst/extdata/example_peps-master/data/frog1_data.txt
inst/extdata/example_peps-master/data/frog1b_data.txt
inst/extdata/example_peps-master/data/frog4_data.txt
inst/extdata/example_peps-master/data/frog2_data.txt
inst/extdata/example_peps-master/data/frog2b_data.txt
inst/extdata/example_peps-master/data/frog1b_data2.txt
inst/extdata/example_peps-master/data/frog1c_data2.txt
inst/extdata/example_peps-master/data/frog2a_data.txt
inst/extdata/example_peps-master/example_nextflow_taxprofiler_pep/nextflow_orig.csv
inst/extdata/example_peps-master/example_nextflow_taxprofiler_pep/samplesheet.csv
inst/extdata/example_peps-master/example_nextflow_taxprofiler_pep/config.yaml
inst/extdata/example_peps-master/example_nextflow_taxprofiler_pep/samplesheet_schema.yaml
inst/extdata/example_peps-master/example_duplicate/project_config.yaml
inst/extdata/example_peps-master/example_duplicate/sample_table.csv
inst/extdata/example_peps-master/example_amendments2/sample_table_pre.csv
inst/extdata/example_peps-master/example_amendments2/project_config.yaml
inst/extdata/example_peps-master/example_amendments2/sample_table.csv
inst/extdata/example_peps-master/example_amendments2/sample_table_noFrog.csv
inst/extdata/example_peps-master/example_amendments1/sample_table_newLib2.csv
inst/extdata/example_peps-master/example_amendments1/sample_table_pre.csv
inst/extdata/example_peps-master/example_amendments1/project_config.yaml
inst/extdata/example_peps-master/example_amendments1/sample_table_newLib.csv
inst/extdata/example_peps-master/example_amendments1/sample_table.csv
inst/extdata/example_peps-master/example_subtable_automerge/subsample_table.csv
inst/extdata/example_peps-master/example_subtable_automerge/project_config.yaml
inst/extdata/example_peps-master/example_subtable_automerge/sample_table.csv
inst/extdata/example_peps-master/example_node_alias/project_config1.yaml
inst/extdata/example_peps-master/example_node_alias/README.md
inst/extdata/example_peps-master/example_node_alias/project_config.yaml
inst/extdata/example_peps-master/example_node_alias/sample_table.csv
inst/extdata/example_peps-master/example_missing_version/project_config.yaml
inst/extdata/example_peps-master/example_missing_version/sample_table.csv
inst/extdata/example_peps-master/example_subtable3/subsample_table.csv
inst/extdata/example_peps-master/example_subtable3/project_config.yaml
inst/extdata/example_peps-master/example_subtable3/sample_table.csv
inst/extdata/example_peps-master/example_subtable4/subsample_table.csv
inst/extdata/example_peps-master/example_subtable4/project_config.yaml
inst/extdata/example_peps-master/example_subtable4/sample_table.csv
inst/extdata/example_peps-master/example_subtables/subsample_table.csv
inst/extdata/example_peps-master/example_subtables/project_config.yaml
inst/extdata/example_peps-master/example_subtables/subsample_table1.csv
inst/extdata/example_peps-master/example_subtables/sample_table.csv
inst/extdata/example_peps-master/example_automerge/project_config.yaml
inst/extdata/example_peps-master/example_automerge/sample_table.csv
inst/extdata/example_peps-master/example_subtable1/subsample_table.csv
inst/extdata/example_peps-master/example_subtable1/project_config.yaml
inst/extdata/example_peps-master/example_subtable1/sample_table.csv
build/vignette.rds
tests/testthat.R
tests/testthat/test_project_operations.R
tests/testthat/test_config.R
tests/testthat/test_utils.R
tests/testthat/test_project.R
vignettes/gettingStarted.Rmd
vignettes/feature1_constantAttributes.Rmd
vignettes/feature5_sampleSubtable.Rmd
vignettes/feature4_derivedImpliedAttributes.Rmd
vignettes/feature6_amendments.Rmd
vignettes/feature3_derivedAttributes.Rmd
vignettes/feature2_impliedAttributes.Rmd
man/dot-applyAmendments.Rd
man/activateAmendments.Rd
man/dot-listifyDF.Rd
man/getSubsample.Rd
man/sampleTable.Rd
man/dot-autoMergeDuplicatedNames.Rd
man/dot-inferProjectName.Rd
man/dot-isCfg.Rd
man/Project.Rd
man/dot-isAbsolute.Rd
man/dot-getSubscript.Rd
man/dot-mergeAttrs.Rd
man/makeSectionsAbsolute.Rd
man/dot-getSubSampleTablePathFromConfig.Rd
man/dot-loadSubsampleAnnotation.Rd
man/dot-loadConfig.Rd
man/dot-implyAttrs.Rd
man/dot-strformat.Rd
man/dot-reformat.Rd
man/checkSection.Rd
man/dot-appendAttrs.Rd
man/dot-matchesAndRegexes.Rd
man/dot-applyImports.Rd
man/dot-expandList.Rd
man/Project-class.Rd
man/dot-loadSampleAnnotation.Rd
man/dot-duplicateAttrs.Rd
man/dot-safeFileExists.Rd
man/pepr.Rd
man/select-config.Rd
man/dot-getTableIndexes.Rd
man/dot-checkSection.Rd
man/dot-makeAbsPath.Rd
man/config.Rd
man/dot-printNestedList.Rd
man/dot-deriveAttrs.Rd
man/dot-isValidUrl.Rd
man/dot-expandPath.Rd
man/Config-class.Rd
man/getSample.Rd
man/dot-modifySamples.Rd
man/listAmendments.Rd
man/dot-getSampleTablePathFromConfig.Rd
man/dot-removeAttrs.Rd
man/fetchSamples.Rd
