Man pages for pepkit/pepr
Reading Portable Encapsulated Projects
| activateAmendments | Activate amendments in objects of '"Project"' |
| checkSection | Check for existence of a section in the Project config |
| config | Extract '"Project"' |
| Config-class | Config objects and specialized list obejcts and expand string... |
| dot-appendAttrs | Append constant attributes across all the samples |
| dot-applyAmendments | Apply amendments |
| dot-applyImports | Function for recursive config data imports |
| dot-autoMergeDuplicatedNames | Merge samples with identical names |
| dot-checkSection | Check for a section existence in a nested list |
| dot-deriveAttrs | Derive attributes |
| dot-duplicateAttrs | Duplicate a selected attribute across all the samples |
| dot-expandList | Recursively try to expand list of strings |
| dot-expandPath | Expand system path |
| dot-getSampleTablePathFromConfig | Get the sample table from config |
| dot-getSubSampleTablePathFromConfig | Get the subsample tables from config |
| dot-getSubscript | Get list subscript |
| dot-getTableIndexes | Set table indexes |
| dot-implyAttrs | Imply attributes |
| dot-inferProjectName | Infer project name |
| dot-isAbsolute | Determine whether a path is absolute. |
| dot-isCfg | Config file or annotation file |
| dot-isValidUrl | Determine whether the string is a valid URL |
| dot-listifyDF | Listify data frame columns |
| dot-loadConfig | Load the config of a PEP |
| dot-loadSampleAnnotation | Read sample table from disk |
| dot-loadSubsampleAnnotation | Load single subsample annotation |
| dot-makeAbsPath | Create an absolute path from a primary target and a parent... |
| dot-matchesAndRegexes | Create a list of matched files in the system and unmatched... |
| dot-mergeAttrs | Merge samples defined in sample table with ones in subsample... |
| dot-modifySamples | Perform all the sample attribute modifications |
| dot-printNestedList | Print a nested list |
| dot-reformat | Check config spec version and reformat if needed |
| dot-removeAttrs | Remove attributes across all the samples |
| dot-safeFileExists | Check whether the string is a valid URL or an existing local... |
| dot-strformat | Format a string like python's format method |
| fetchSamples | Collect samples fulfilling the specified requirements |
| getSample | Extract samples |
| getSubsample | Extract subsamples |
| listAmendments | List amendments |
| makeSectionsAbsolute | Make selected sections absolute using config path |
| pepr | pepr |
| Project | The constructor of a class representing a Portable... |
| Project-class | Portable Encapsulated Project object |
| sampleTable | View samples in the objects of '"Project"' |
| select-config | Access '"Config"' object elements |
