The following tables describe the available user interface panels, or "web parts". Not all web parts are available in all configurations.

Left Side, Wide Web Parts

Web Part NameDescriptionDocumentation
Assay BatchesDisplays a list of batches for a specific assayWork with Assay Data
Assay ListProvides a list of available assay designs and options for managing assaysAssay List
Assay ResultsDisplays a list of results for a specific assayWork with Assay Data
Assay RunsDisplays a list of runs for a specific assayWork with Assay Data
Assay ScheduleDefine and track expectations of when and where particular assays will be runManage Assay Schedule
CDS ManagementManagement area for the Dataspace folder typeCollaborative DataSpace Case Study
ContactsList of users on this serverContacts
Custom Protein ListsShows protein lists that have been added to the current folderUsing Custom Protein Annotations
Data ClassesCapture capture complex lineage and derivation information, especially when those derivations include bio-engineering systems such as gene-transfected cells and expression systems.DataClasses
Data PipelineConfigure the data pipeline for access to data files and set up long running processesData Processing Pipeline
Data Transform JobsProvides a history of all executed ETL runsETL: User Interface
Data TransformsLists the available ETL jobs, and buttons for running themETL: User Interface
Data ViewsData browser for reports, charts, viewsData Views Browser
DatasetsDatasets included in the studyManage Datasets
Enrollment ReportSimple graph of enrollment over time in a visit based studyEnrollment Report
Experiment RunsList of runs within an experimentExperiment Terminology
Feature Annotation SetsSets of feature/probe information used in microarray assaysExpression Matrix Assay Tutorial
FilesThe file repository panel. Upload files for sharing and import into the databaseFiles
Flow AnalysesList of flow analyses that have been performed in the current folderStep 4: View Results
Flow Experiment ManagementTracks setting up an experiment and analyzing FCS filesStep 1: Set Up a Flow Folder
Flow ReportsCreate and view positivity and QC reports for Flow analysesFlow Reports
Flow ScriptsAnalysis scripts each holding the gating template, rules for the compensation matrix, and which statistics and graphs to generate for an analysisStep 1: Define a Compensation Calculation
Immunization ScheduleShow the schedule for treatments within a studyManage Study Products
Issues ListTrack issues for collaborative problem solvingStep 3: Track Issues
Issues SummarySummary of issues in the current folder's issue trackerUsing the Issue Tracker
List - SingleDisplays the data in an individual listList Web Parts
ListsDisplays directory of all lists in the current folderList Web Parts
Manage Peptide InventorySearch and pool peptides via this management interfacePeptide Search
Mass Spec Search (Tabbed)Combines "Protein Search" and "Peptide Search" for convenienceProtein Search
MessagesShow messages in this folderMessages
Messages ListShort list of messages without any detailsMessages
Microarray RunsList of microarray runsMicroarray Assay Tutorial
MS1 Feature SearchSearch by mass-to-charge ratio or retention timeMS1
MS1 RunsList of MS1 runsMS1
MS2 RunsList of MS2 runsExplore the MS2 Dashboard
MS2 Runs BrowserFolder browser for MS2 runsView, Filter and Export All MS2 Runs
MS2 Runs with Peptide CountsAn MS2Extensions web part adding peptide counts with comparison and export filtersPeptide Search
MS2 Sample Preparation RunsList of sample preparation runsExplore the MS2 Dashboard
Pending MAGE-ML FilesList of pending microarray data filesMicroarray Assay Tutorial
Peptide Freezer DiagramDiagram of peptides and their freezer locationsPeptide Search
Peptide SearchSearch for specific peptide identificationsPeptide Search
Pipeline FilesA management interface for files uploaded through the pipelineData Processing Pipeline
ProjectsProvides a list of projects on your siteProjects Web Part
Protein SearchDashboard for protein searches by name and minimum probabilityStep 6: Search for a Specific Protein
QueryShows results of a query as a gridQuery Web Part
ReportDisplay the contents of a report or viewReport Web Part: Display a Report or Chart
Run GroupsList of run groups within an analysis.Run Groups
Run TypesLinks to a list of experiment runs filtered by typeExperiment Terminology
Sample SetsSets of samples that have been uploaded for inclusion in assays/experimentsSample Sets
SearchText box to search wiki & other modules for a search stringSearch
Sequence RunsList of genotyping sequencing runs 
Specimen ReportSummary report on the specimen repositoryGenerate Specimen Reports
Specimen SearchSearch the specimen repositoryView Specimen Data
Specimen ToolsButtons for common specimen repository tasksStep 3: Request Specimens (User)
SpecimensList of specimens by typeView Specimen Data
Study Data ToolsButton bar for common study analysis tasks. Buttons include, Create A New Graph, New Participant Report, etc.Step 2: Study Data Dashboards
Study ListDisplays basic study information (title, protocol, etc.) in top-down document fashion.Study Tour
Study OverviewManagement links for a study folder.Study Tour
Study Protocol SummaryOverview of a Study Protocol (number of participants, etc).Study
Study ScheduleTracks data collection over the span of the study.Study Schedule
Participant DetailsDashboard view for a particular study participant.Study Tour
Participant ListInteractive list of participants. Filter participants by group and cohort.Study Tour
Survey DesignsA list of available survey designs/templates to base surveys on.Tutorial: Survey Designer, Step 1
SurveysA list of survey results, completed by users.Tutorial: Survey Designer, Step 1
Vaccine DesignDefine immunogens, adjuvants, and antigens you will studyCreate a Vaccine Study Design
Vaccine Study ProtocolsList of current vaccine protocols (deprecated interface)Create a Vaccine Study Design
ViewsList of the data views in the study, including R views, charts, SQL queries, etc.Customize Grid Views
WikiDisplays a wiki page.Wikis
Workbooksmakecolumnwider Provides a light-weight container for managing smaller data files.Workbooks

Right Side, Narrow Web Parts

Web Part NameBrief DescriptionDocumentation
FilesLists a set of filesFiles
Flow SummaryCommon flow actions and configurationsStep 1: Set Up a Flow Folder
ListsDirectory of the lists in a folderLists
Microarray SummarySummary of Microarray informationMicroarray
MS2 StatisticsStatistics on how many runs have been done on this server, etcMass Spectrometry
Protein SearchForm for finding protein informationMass Spectrometry
ProtocolsDisplays a list of protocolsExperiment Descriptions & Archives (XARs)
Run GroupsList of run groupsRun Groups
Run TypesList of runs by typeRun Groups
Sample SetsSets of samples that have been uploaded for inclusion in assays/experimentsExperiment Descriptions & Archives (XARs)
SearchText box to search wiki & other modules for a search stringSearch
Specimen ToolsButtons for common specimen repository tasksStep 3: Request Specimens (User)
SpecimensVertical list of specimens by typeCustomize Specimens Web Part and Grid Views
Study Data ToolsButton bar for common study analysis tasks. Buttons include, Create A New Graph, New Participant Report, etc.Step 2: Study Data Dashboards
Participant ListList of study participantsStudy Tour
ViewsList of views available in the folderCustomize Grid Views
WikiDisplays a narrow wiki pageWikis
Wiki Table of ContentsTable of Contents for wiki pagesWikis


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