Version 3.10 Release Now Available with Powerful New Functionality
We continue to focus on your success: update chains in saved sequence combinations for easy bispecific screening, accelerate XIC processing, better handle duplicated peptides in multispecifics and HCPs, generate in-silico peptides for disulfide linkages, customize peaks scoring and annotation, and more!
Some highlighted enhancements include (but are not limited to):
- Read about everything new in the Release Notes. Just go to Help > Open User Guides menu to find this important document.
- Did you find yourself having to update file paths after saving customized workflows? We heard you and the paths are now automatically updated.
- Did you wish it were easier to prepare filing-ready images? We agreed and label dots in the Chromatogram, Deconvolved Mass, and MS1 plots can now be removed.
- Everyone wants to process more quickly. We have a new tool to accelerate XIC generation – FastXIC.
- Did you find yourself struggling with bispecifics? Intact wflws now enable the user to update chains in saved sequence combinations, allowing easy screening.
- Have you been challenged by duplicated peptides in multispecifics and HCPs? These can now be viewed in a new column “Protein summary list”. Inconsistent protein assignments between samples can be corrected to assign to the highest ranking protein to all samples.
- Have you wanted to enter custom peaks in Byonic? Now you can through user-specified custom peaks scoring and annotation.
- Did you already love our validators? Well, now there is more to love with further improvements to the Mod Validator a new Wildtype Validator.
- Did you wish you could select alternative peptide assignments? Good news – the Peptide workflow now includes the new “Replace” button.
- Were you trying to associate sequence combinations with individual samples? Now you can in the updated Traces table.
- Were you confused why all non-MS traces were reported as UV? Now you will see UV, FLR, DAD, etc correctly in the Samples tab.
- We of course have new reporting capabilities including glycan groups to better support glycopeptide analyses, additional columns and tabs for enhanced usability, new color options, and more!
- Any queries? Don’t forget you can always ask for technical support at support@proteinmetrics.com.
VERSION 3.9-7 | June, 2020
Version 3.9 Release Now Available with Powerful New Functionality
We continue to focus on your success: extensive customer requests addressed across all Byos® workflows and reporting including generating zoomed plots around observed masses, new “Clipped” status and “Expected Type” column, enhancements to Feature Finder, and more!
Some highlighted enhancements include (but are not limited to):
- Read about everything new in the Release Notes. Just go to Help > Open User Guides menu to find this important document.
- Thanks to customer feedback, we have an extensive set of new functionalities for you!
- Did you always want to automatically generate zoomed plots around observed masses? Good news, we added it! This is set up at project creation.
- Want to do more in Byos? We added new database options, parameters including Wildcard Search and Custom Crosslink, and the ability to add additional Byonic nodes.
- Did you find yourself updating many default parameters in Byos? We listened to your feedback and made several updates – Byos is easier to use for more types of analyses.
- Want to include clips in your recognized modified species? Now you can – the new “Expected type” column includes a “Clipped” status.
- Want to view the m/z baseline subtraction in MS1 plots? This is a new option in the Render and zoom options!
- Are you enjoying the benefits of Feature Finder for MS2 feature matching? We made it even better with two additional parameters.
- We of course have new reporting capabilities including add free text, edit fonts, filter in the plots tab, and more!
- Any queries? Don’t forget you can always ask for technical support at support@proteinmetrics.com.
Version 3.8-11 | March, 2020
Version 3.8 Release Now Available with Powerful New Functionality
We continue to focus on customer success: usability focus for elution peaks and traces, new Peptide Manager for enhanced in-silico capabilities, Sample-protein tab added to Byos, diagnostic peak filtering, pI values, enhanced support for UNIFI integration, new reporting capabilities, and more!
- Read about everything new in the Release Notes. Just go to the Help > Open User Guides menu to find this important document!
- Want to enter elution peaks parameters and add traces much more easily? We have done a major usability enhancement – the parameters have been moved to the Samples and Sample input tabs and traces are organized in a Traces table within the Samples/Sample input tabs.
- Did you always want to use the Sample-protein input tab in Byos? Good news, we added it! The CSV template is created through File > Export > Generate MS path template CSV.
- Want to intelligently search for distinct masses? Now you can with new MS/MS Filtering, particularly useful for glycans, antibody-drug-conjugates, etc.
- Do you like our in-silico functionalities but wish everything were in one place? We have a new Peptide Manager providing a color-coded preview of project changes and enhanced control over which rows and columns are affected.
- We also addressed your requests for Average Mass, Monoisotopic Mass, and Biopolymer Models – users can now designate peptide chain masses without sequences as average mass or monoisotopic mass.
- Want to include pI values in the Peptides table? A new column was added to the “Peptides” table. This is also included in the report.
- Interested in the Byos UNIFI Application Programming Interface (API)? We spiffed it up – sample results stored in the Waters UNIFI API can now be loaded directly into Byos. The integration requires installation of the Waters UNIFI API and configuration of both UNIFI and Byos.
- We of course have new reporting capabilities including advanced color-by features in 3D reporting, multiple color assignments in heatmaps, and more!
- Any queries? Don’t forget you can always ask for technical support at support@proteinmetrics.com.
Version 3.7 | December, 2019
Version 3.7-32 | January, 2020
Version 3.7 Release Now Available with Powerful New Functionality
Version 3.7 continues to focus on customer success: enhanced support for oligonucleotide sequences, Feature Finder included in the UI, combinatorial calculations, Protein molecular weight column, additional columns and annotation for monoisotopic mass, new reporting capabilities, and more!
Bug fixes in version 3.7-32 :
- Byologic: comment counting, in-silico alignment
- Byomap: fractional minute offsets, label scripts
- Batcher: File paths
- I/O: Lumos and Velos Pro data reading
- Byologic: Feature Finder processing of TOF data
- Read about everything new in the Release Notes. Just go to the Help > Open User Guides menu to find this important document!
- Want to enter your oligonucleotide sequences much more easily? We have a new “Oligonucleotide” radio button based upon your feedback on several items including naming conventions, ability to enter custom letters and symbols, and automated updates to the Sequences sub-tab.
- Did you really enjoy our beta offering of Feature Finder but wished it were in the user interface? You are in luck – this new algorithm which allows the user to scan the MS1 domain for all existent peptides in a sample is now controlled in the UI.
- Do you wish there was a way to add combinatorial delta masses in Intact Mass? You asked, we listened – this has been added via an “Add combinations” button.
- We took your feedback on the additional items you wanted to see related to monoisotopic mass – additional columns in the Elution Peaks and Masses tables (Delta mass from most intense, Delta mono mass from most intense, Expected mono mass, Delta mono mass, and Delta mono mass (ppm)).
- We also addressed your request to highlight the monoisotopic mass in the Deconvolved Mass Spectrum – you will now see an orange diamond at that mass.
- Want to include the protein molecular weight in the Peptides table? A new column was added to the “Peptides” table in Byologic and Byos. Now you can report your HCPs in molar concentration or in mass concentration.
Version 3.6 | September, 2019
Version 3.6 Release Now Available with Powerful New Functionality
Version 3.6 continues to focus on customer success: UI update in Intact, WIFF2 processing, stacked plots, support for in-source dissociation, peak evaluation logic, and more.
- Read about everything new in the Release Notes. Just go to the Help menu to find this important document – it is 18 pages for this release!
- Want to enter your protein details much more easily? We have taken your feedback on combining chains, defining the number of disulfide bonds, considering clipped species, setting commonly modified residues, specifying atomic weights, and selecting the biopolymer type (DNA, RNA, and the default protein). Yes, you can now use Byos to analyze oligonucleotides.
- Want to process WIFF2 files from SCIEX? This is now fully supported.
- Want to use your own PDB file in 3-D reporting? Now you can.
- Want to quickly identify in-source dissociation (ISD)? A new column was added to the “Candidates” table in the detached glycan workflows.
- Want to automatically inspect a degradation or sequence variant project for possible false positives without having to toggle between the project and report? Give the new “Mod Validator” and “SVA Validator” a try.