Man pages for booker-tremayne/new-prideR
Explore the Pride Archive in R
| accession-compactProjectSummary-method | Returns a project accession |
| accession-ProjectSummary-method | Returns a project accession |
| accession-set-compactProjectSummary-method | Replaces a project accession |
| accession-set-ProjectSummary-method | Replaces a project accession |
| affiliations-compactProjectSummary-method | Returns a affiliations |
| affiliations-set-compactProjectSummary-method | Replaces the affiliations |
| compactProjectSummary | Constructor for compactProjectSummary |
| compactProjectSummary-class | compactProjectSummary represents a PRIDE Archive project... |
| create.filter | Creates the url for all of the specified filters |
| data.processing.protocol-ProjectSummary-method | Returns a project data processing protocol |
| data.processing.protocol-set-ProjectSummary-method | Replaces a project data processing protocol |
| diseases-compactProjectSummary-method | Returns a project disease names |
| diseases-ProjectSummary-method | Returns a project diseases |
| diseases-set-compactProjectSummary-method | Replaces the project disease nanmes |
| diseases-set-ProjectSummary-method | Replaces a project diseases |
| download.by.accession | Searches for project and downloads all files from it |
| download.by.fileDetail | Downloads files given to it |
| download.by.name | Searches for a file by name and downloads it |
| download.link-FileDetail-method | Returns a file download link |
| download.link-set-FileDetail-method | Replaces a file download.link |
| download.project.list | Downloads all projects from given project list |
| file.bytes-FileDetail-method | Returns a file size |
| file.bytes-set-FileDetail-method | Replaces a file size |
| FileDetail | Constructor for FileDetail |
| FileDetail-class | FileDetail represents a PRIDE Archive file |
| FileDetailList | FileDetailList represents a list of FileDetails organized by... |
| filegeneric | File Detail related generics |
| file.name-FileDetail-method | Returns a file name |
| file.name-set-FileDetail-method | Replaces a file name |
| file.type-FileDetail-method | Returns a file type |
| file.type-set-FileDetail-method | Replaces a file type |
| from.json.compactProjectSummary | Returns a compactProjectSummary instance from a JSON string... |
| from.json.FileDetail | Returns a FileDetail instance from a JSON string... |
| from.json.ProjectSummary | Returns a ProjectSummary instance from a JSON string... |
| get.FileDetail | Returns a list of PRIDE Archive files associated with a... |
| get.FileDetail.by.name | Finds all the files with the user given file name |
| get.FileDetailList | Returns a FileDetailList for each of the projects given to it... |
| get.list.PeptideDetail | Returns a list of peptides from Pride |
| get.list.ProteinDetail | Returns a list of protein from Pride |
| get.PeptideDetail.accession | Returns a list of peptides from a specific project from Pride |
| get.ProjectSummary | Returns a PRIDE Archive project |
| get.ProteinDetail.accession | Returns a list of proteins from a specific project from Pride |
| get.similar.projects | Returns similar projects from the project with the given... |
| identified.ptm.strings-ProjectSummary-method | Returns a project modification names |
| identified.ptm.strings-set-ProjectSummary-method | Replaces the project PTMs |
| instruments-compactProjectSummary-method | Returns a project instrument names |
| instruments-ProjectSummary-method | Returns a project instrument names |
| instruments-set-compactProjectSummary-method | Replaces the project instrument nanmes |
| instruments-set-ProjectSummary-method | Replaces the project instrument nanmes |
| lab.PIs-compactProjectSummary-method | Returns a lab PIs |
| lab.PIs-set-compactProjectSummary-method | Replaces the lab PIs |
| list.ProjectSummary | Returns a list of PRIDE Archive project summaries |
| organism.parts-compactProjectSummary-method | Returns a project organism.parts |
| organism.parts-ProjectSummary-method | Returns a project organism.parts |
| organism.parts-set-compactProjectSummary-method | Replaces the project organism.parts |
| organism.parts-set-ProjectSummary-method | Replaces the project organism.parts |
| organisms-compactProjectSummary-method | Returns a project organisms |
| organisms-ProjectSummary-method | Returns a project organisms |
| organisms-set-compactProjectSummary-method | Replaces the project organisms |
| organisms-set-ProjectSummary-method | Replaces the project organisms |
| PeptideDetail | Returns a ProteinDetail from the corresponding json object |
| print.FileDetailList | Print out FileDetailList object |
| print.PeptideDetail | Prints PeptideDetail |
| print.ProteinDetail | Prints ProteinDetail |
| project.accession-FileDetail-method | Returns a file project.assay |
| project.accession-set-FileDetail-method | Replaces a file project accession |
| project.description-compactProjectSummary-method | Returns a project description |
| project.description-ProjectSummary-method | Returns a project description |
| project.description-set-compactProjectSummary-method | Replaces a project description |
| project.description-set-ProjectSummary-method | Replaces a project description |
| projectgeneric | Project Summary related generics |
| ProjectSummary | Constructor for ProjectSummary |
| ProjectSummary-class | ProjectSummary represents a PRIDE Archive project dataset |
| project.tags-compactProjectSummary-method | Returns a project tags |
| project.tags-ProjectSummary-method | Returns a project tags |
| project.tags-set-compactProjectSummary-method | Replaces the project tags |
| project.tags-set-ProjectSummary-method | Replaces the project tags |
| project.title-compactProjectSummary-method | Returns a project title |
| project.title-ProjectSummary-method | Returns a project title |
| project.title-set-compactProjectSummary-method | Replaces a project title |
| project.title-set-ProjectSummary-method | Replaces a project title |
| ProteinDetail | Returns a ProteinDetail from the corresponding json object |
| publication.date-compactProjectSummary-method | Returns a project publication date |
| publication.date-ProjectSummary-method | Returns a project publication date |
| publication.date-set-compactProjectSummary-method | Replaces a project publication date |
| publication.date-set-ProjectSummary-method | Replaces a project publication date |
| quantification.methods-ProjectSummary-method | Returns a project quantification methods |
| quantification.methods-set-ProjectSummary-method | Replaces a project quantification methods |
| sample.processing.protocol-ProjectSummary-method | Returns a project sample processing protocol |
| sample.processing.protocol-set-ProjectSummary-method | Replaces a project sample processing protocol |
| search.FileDetail | Searches a list of projects for keyword matches |
| search.FileDetail.loop | The function that determines whether the project has... |
| search.ProjectSummary | Returns a series of PRIDE Archive projects to satisfy a given... |
| show-compactProjectSummary-method | Show the print-out version of the content in a... |
| show-FileDetail-method | Print out the details of the FileDetail on screen |
| show-ProjectSummary-method | Show the print-out version of the content in a ProjectSummary |
| submission.type-compactProjectSummary-method | Returns a project submission type |
| submission.type-ProjectSummary-method | Returns a project submission type |
| submission.type-set-compactProjectSummary-method | Replaces the project submission type |
| submission.type-set-ProjectSummary-method | Replaces the project submission type |
| submitters-compactProjectSummary-method | Returns a submitters |
| submitters-set-compactProjectSummary-method | Replaces the submitters |
