+34 958 991 543 info@cloverbiosoft.com

Changelog


Timeline

2025
Clover MSDAS v1.12 Major Update
  • Spectra files from Autobio Diagnostics – Autof-MS® are now supported.
  • A spectra viewer has been added to the FTIR Quality Analysis module, allowing you to inspect the details more easily.
  • You can now validate several prediction models at the same time. In a single step, compare how each model performs on unseen test data.
  • Mark any prediction model you have access to as a favourite, and it will appear as a direct link on the home screen.
  • With previous versions you could use our Outlier Analysis module to detect global outlier spectra across your entire dataset. Now, you can also easily identify local outlier spectra within replicates acquired during sample acquisition.
  • Using shapley values to gain explanatory insights of your tree-based prediction models? The SHAP beeswarm plot now displays the spectrum name for each value when you hover over them.
  • Core libraries have been upgraded to boost performance, improve data reliability, and be prepared for future developments and challenges
Clover MSDAS v1.11 Major Update
  • The FTIR Quality module can now be applied as a pipeline step in your experiment. Run the quality analysis on your FTIR spectra, mark those below your thresholds as ‘quality failed’, and they will be excluded from subsequent steps.
  • In the Find Peaks process, you can choose whether to measure the peak intensity or the peak area
  • The Find Peaks process now displays information about the SNR and resolution of detected peaks. You may filter the results by setting an SNR threshold to discard noisy peaks.
  • Mark items as favourite. You can now mark any study or peak matrix you have access to as a favourite, providing a direct link on the home screen.
  • You can directly upload new files from the folder tree list or in the “Create Study” screen, for your convenience.
  • You can now export any previously uploaded file to CSV or mzML format.
2024
Analysis of high-molecular-weight proteins using MALDI-TOF MS and machine learning for the differentiation of clinically relevant Clostridioides difficile ribotypes
Multicenter evaluation of Fourier transform infrared (FTIR) spectroscopy as a first-line typing tool for carbapenemase-producing Klebsiella pneumoniae in clinical settings
Clover MSDAS v1.10.0 Major Update
  • Identification Routine is now available. It is a new user interface to simplify the identification and the use of all prediction models available for clinical routine.
  • Easily share your home-built prediction models across all users in your organization.
  • SMOTE algorithm is now available. Use it when training prediction models to mitigate issues related with unbalanced datasets. Synthetic samples will be added to complete the smallest categories.
  • PDF reports can now be generated in:
    • Identification modules
    • Validation modules
    • Prediction models training
  • Home Screen:
    • Starred (favourites) peak matrices are now displayed on Home screen.
  • Experiment & Peak matrix Screens
    • Improvements in the UI design of algorithms and categories.
Clover MSDAS v1.8.9
  • KMeans: First version of K-Means Algorithm is now available for all users
  • Identification: A slider with prediction confidence cut-off values to Identification results view is added. Cut-off can be edited and saved
  • Prediction Models improvements:
    • First version of re-train prediction models with new samples is now available for premium users
    • Now optimizaction information, if available, is displayed
  • Users can now uploading zip files with open format files in it. Folder hierarchy is kept
  • Collection: Add editor options to Usage Notes and Abstract fields
  • Training: Youden Index is now available in ROC curve in training.
Clover MSDAS v1.8.4
  • Ribopeaks: First version of Ribopeaks integration in experiment detail view
  • Alignment: Now spectra can be aligned by selecting reference peaks
  • Validation: Users now can compare one category versus the others to obtain all metrics
  • Correlation Analysis: Heatmap is now included in pairwise mode
  • Biomarker Analysis: Wilcoxon-Mann-Whitney test is now available
  • Global Prediction Bases are now available for Premium MALDI users.
Clover MSDAS v1.8 Experiment Pipeline
  • Experiment new workflow: First version of the experiment view redesign project, which includes a data flow pipeline for selecting the three main processes before the peak matrix (Preprocessing, Outlier, and Train/Test set splitting).
  • Outlier: With the new experiment workflow, selected outlier samples will be skipped in subsequent actions.
Clover MSDAS v1.7.2 Task list update
  • Task list: First version of Task list functionality to check the state of the user tasks in the last 2 days
  • Antibiotic Analysis Detection Module: Enabled test module for new Imipenen values
  • Studies: Now studies can be archived
  • Reproducibility tests: ANOVA results are now displayed for analysis with more than two categories
  • Premium/Basic accounts: Now user can distinguish between MALDI and FTIR premium when accesing to the different modules
  • Correlation Analysis: User now can export a unique excel file with the results of all groups
2023
Clover MSDAS v1.7.1 Antibiotic Analysis Detection Module
  • Antibiotic Analysis Detection
    • Module enable for all Premium Users
    • Works with or without multicenter projects
  • Mabritec Central:
    • Mabritec Central is now available for all Premium Users
    • Mabritec Central has now its own box in Bioanalsysis screen
  • Average Spectra from Replicates: Advanced mode is now available. Now samples with the same name but in different folders are not mixed when grouping replicates.
  • Performance: Improvements in “preprocessing” steps and “peak matrix generation” steps performance
Clover MSDAS v1.7 Major Update
  • FTIR: “Extended Polysaccharide” (1300-800) region is now available as preset in FTIR mode
  • Correlation analysis: Correlation analysis is now available with MALDI-TOF data
  • Train/Test datasets:
    • New method for splitting data into train and test datasets is added
    • Info of splitted sets can be download as csv
    • Category table info is now displayed at experiment detail view
    • When params have no changed, a button is now available to resplit the data into two different datasets
  • Find Peaks Algorithm: Dynamic Threshold algorithm is now available
  • Biomarker Analysis:
    • New option to discriminate one category from the rest in ROC analysis is now available
    • Now users can now directly create a new peak matrix in a new step in Biomarker Analsyis with selected peaks
    • Number of samples of each category is now displayed
  • Validation: Now samples categories in categories step of the validation process are now recognized automatically
  • Dendrogram: A toggle button is added to show/hid the cut-off value
  • SVM: Poly Kernel option is now available
  • Correlation/Distance Heatmap: Now color is from blut to red space. Gaps are added between cells
Discrimination between hypervirulent and non-hypervirulent ribotypes of Clostridioides difficile by MALDI-TOF mass spectrometry and machine learning
Clover MSDAS – Mabritec Integration

  • Export and import files to/from Mabritec tool is now available.
  • Imported identification from Mabritec are now displayed in Clover MSDAS.
Clover MSDAS v1.6.6 Minor Update
  • Hierarchical Clustering:
    • Cut-off value can be now calculated in automatic or optimal mode.
    • Features dendrogram is now available when you build a matrix with peaks.
  • Outlier detection:
    • A table with summarized analysis is now added.
    • User can now modify the STD value limits.
    • Samples can now be marked and saved as outliers within an experiment.
Rapid Discrimination of Pseudomonas aeruginosa ST175 Isolates Involved in a Nosocomial Outbreak Using MALDI-TOF Mass Spectrometry and FTIR Spectroscopy Coupled with Machine Learning
Clover MSDAS v1.6 Major Hierarchical Clustering & Dendrogram Update
  • Hierarchical Clustering & Dendrogram
    • PCA at HC: Now PCA data is displayed when retrieving HC
    • Size plot and graphs can be now edited by the user
    • Dendrogram: Color squares can be now edited by the user
    • Cut-off: User can set a custom cutoff value to detect the clusters
    • Summary Table: A new table is displayed summarizing the content of the detected cluster and how the actual categories/classes are distributed
    • Categories as Dendrogram Metadata: One or several columns can be displayed next to the dendrogram. Each column has one coloured rectangle per spectrum. Each rectangle color matches one of the actual categories/classes labelled for the spectrum. This way, it is easy to visually check the detected clusters (unsupervised) and the actual clusters (supervised categories/classes)
  • Dual Tech: MALDI & FTIR
    • Now you can add your preferred technology at SignUp view
    • At User Profile section you can change now your preferred technology
    • Filter in Study List so MALDI-TOF or FTIR can be selected
  • Antibiotic Hydrolysis Analysis
    • Support for Meropenem
Clover Garden Repository release

Clover MSDAS v1.5 Major Update: Features & Improvements
  • Premium users mode is now activated. All module and features are now unlimited for premium users.
  • FT-IR data.
    • FTIR Quality Control Module: First version of QC test for FTIR data.
    • Inclusion of new default ranges and internal improvements in range selection with FTIR data.
    • FTIR Reproducibility Module: First Version of reproducibility Analysis for FTIR data.
  • Algorithms.
    • Balanced Accuracy metric at confusion matrix is now calculated and displayed in confusion matrices.
    • PCA: Edit size, color and shape of displayed dots.
  • Analysis.
    • t-test is now available in biomarker analysis as univariate analysis.
    • MALDI Biomarker Analysis Module have been redesigned.
    • SNP pairwise distance heatmap: First version of Single Nucleotide Polymorphism heatmap.
Direct Detection of Carbapenemase-Producing Klebsiella pneumoniae by MALDI-TOF Analysis of Full Spectra Applying Machine Learning
Automatic discrimination of species within the Enterobacter cloacae complex using MALDI-TOF Mass Spectrometry and supervised algorithms

Contact Information | Clover Bioanalytical Software

Visit us

Phone Number

(34) 958 991 543

Office

  • Edif. Centro de Empresas PTS.
  • Av. del Conocimiento, 41
  • 18016 Granada, Spain

Copyright © 2015 I Privacy Policy