Analysis comments
You can now add free text comments to an analysis, making it easier to document decisions and to share context with your team or future self.
Comments are visible in the analysis and the matrix view, the last comment can also be seen in the Analysis overview.
Partial exports (opt-in)
You now have more control over what to include and what not to include in exports:
Select which assays and/or master plates to include before exporting.
You can also copy-paste a list of assays in the search box for easy selection.
This feature allows you to export a partial analysis for customers in urgent need of data. Like before, when you authorize, a full export is made.
Export warnings (opt-in)
Generate warnings at export time, helping you to prevent errors or unreviewed data being exported from Genotyper and reaching downstream systems.
4 types of warnings can be enabled:
exporting assay/PCR plate combinations that have not yet been viewed
exporting results that have not yet been approved (once or twice)
conflicting duplicate results detected (same sample, same assay)
PCR plates present without any reads
You can enable these warnings under Settings / Integrations / Exports:
At export-time and at authorization-time, these warnings will be visualized as such:
New reads behaviour setting (opt-in)
This new setting gives you control over what happens to existing scores and approvals when new reads are added to an analysis.
Always rescore (default): clears all scores, manual edits and approvals. All reads are rescored from scratch (same behavior as in Genotyper 3.4).
Never rescore: manual edits are not overruled when new reads are added.
Only rescore unapproved assays: approved assays keep their edits and approvals; only unapproved assays are rescored.
Approval improvements
Several improvements have been made to the approval workflow:
New shortkey for approvals: 'r' to approve selected plate or all unviewed plates from the analysis overview. 'R' to approve all PCR plates
Approval actions are now available at assay level, in addition to PCR plate level - approve your selection or all plates directly from the assay view.
Hovering over the approval checkmark in the analyses overview now shows which users have approved.
Approvals are automatically removed when results are edited or when new reads are added (behaviour aligned with the new reads setting).
Positive control behaviour per assay (opt-in)
Positive controls might not behave well for specific assays. You can now exclude positive control algorithm scoring for those assays.
Under Assays → Reference lines, set positive control behaviour to skip algorithm scoring with expected call for that assay.
Positive control samples remain visually represented in the plot view with their expected calling but remain uncalled by the algorithm not influencing the sample scoring.
Polyploid history
Manual scorings for polyploid heterozygous classes are now stored in history for future reference. This brings even more context to your polyploid scoring workflow.
Hotkeys are added to help you score polyploid heterozygous subclasses.
'y': XYY, XYYY, XYYYY, XYYYYY
'u': XXY, XXYY, XXYYY, XXYYYY
'i': XXXY, XXXYY, XXXYYY
'o': XXXXY, XXXXYY
'p': XXXXXY
Organism & customer information
The analysis overview now visualizes organism and customer information alongside your other analysis details.
Quickly sort and filter analyses by organism or customer, especially useful when working across multiple customers in a shared environment.
Information flows in automatically from your connected data source (Kraken, Lab Portal, or .gtd file).
Additional improvements & bug fixes
A new algorithm version with improved scorings.
Updated color scheme with improved contrast and readability.
For analyses that include reference calls from an external dataset (supplied via the .gtd file format), you can now compare Genotyper's scoring directly against your reference data.
Dyes from Array tape imports can be mapped to a specific axis.
Additional export setting to export .csv with ';' instead of ',' which opens a CSV as separated by column view in Microsoft Excel
Failed plate reasons are now optional.
Fixed: the "last modified by" field now shows a user's display name instead of their email address.
Fixed: in certain scenarios, the wrong read was displayed in the plate view.
Fixed: read display order was inconsistent when an analysis contained multiple PCR plates.
Several minor UI/UX improvements were made.