Flow Documentation

Partek Flow Documentation

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Includes performance optimizations and fixes for improved speed and usability of Partek® Flow® software. To upgrade to this version, please follow the steps outlined in our Installation Guide.

9.0.20.1104

  • A critical bug fix on deleting a task in imported projects

9.0.20.1025

  • Added more plots on single cell QA/QC report
  • Improved hashtag demultiplexing task algorithm
  • Improved the speed of UI
  • Added map protein barcodes to gene expression barcode option on 10X genomics feature barcode technology when process fastq files
  • Minor bug fixes

9.0.20.0927

  • Allowed to select more than one multiple test correct methods in differential analysis except for DESeq2, which only select one method at at time.
  • Added ribosomal gene expression percentage in single cell QA/QC report
  • Added scTransform normalization method
  • Changed observation total count calculation, this will affect CPM, RPKM and FPKM values. Total count was the total aligned reads changed to the sum of reads across all included features in each matrix.
  • Added band width configuration option in MACS2 task
  • Added translate protein barcode ID to gene expression barcode ID option when process 10X Genomics feature barcode technology
  • Minor bug fixes

9.0.20.0913

  • Improved the speed on list management page display
  • Sped up the single cell fastq files process tasks
  • Improved importing ENA projects
  • Improved DESeq2 differential analysis
  • Minor bug fixes

9.0.20.0819

  • Improved the single cell QA/QC plot, make violin plot more visible
  • Improved quantification task on handling file name has comma
  • Added task to calculate descriptive statistics on features and observation
  • Improved importer on GEO/ENA projects

  • Added option to whether retain UMIs mapping to multiple genes in deduplicate UMI task

  • Minor bug fixes

9.0.20.0802

  • Move Help to menu bar on the top of the homepage (from Settings)
  • Added DESeq2 differential analysis task
  • Upgrade distributed JRE to the most recent release version
  • Minor bug fixes

9.0.20.0720

  • Add Bonferroni correction option on differential analysis tasks
  • Improvement on barchart to have the option to scale each sample to 100%
  • Minor bug fixes

9.0.20.0629

  • Fixed split by attributes issue
  • Fixed PCA issue

9.0.20.0622

  • Fixed some aligner issues

9.0.20.0616

  • Improved the speed on user interface
  • Fixed the reset password issue

9.0.20.0611

  • Added file transfer function on Flow homepage
  • Single cell classification result is project level single cell attribute, it can be managed on the data tab
  • Improved data tab interface
  • Added volcano plot as a separate plot type in data viewer
  • Added functionality on configuring axis title and label in data viewer plot
  • Added library file sharing preference in user preference page
  • Added importer on .tsv file format
  • Improved orphaned file verification
  • Bug fixes

9.0.20.0526

  • Improved bioproject download from ENA
  • Added configuration on plot title
  • Added ability to select points on scatterplot legend
  • Allow trajectory analysis to be performed on PCA output node
  • Bug fixes 

9.0.20.0510

  • Added trajectory analysis report into data viewer
  • Added color configuration on box-whisker plot and violin plot
  • Added .pdf option to data viewer download file format
  • Bug fixes 

9.0.20.0426

  • Added importer on data files from single cell portal site
  • Bug fixes 

9.0.20.0421

  • Move Single cell QA/QC plot into data viewer
  • Added more functionalities on user added task module
  • Improved the speed on tSNE computation
  • Bug fixes

9.0.20.0406

  • Added ability to share library files at different levels
  • Improved the user interface on data viewer
  • Added importer on Seurat object
  • Added split matrix data node by categorical attribute
  • Separated PCA calculation from UMAP, tSNE, Graph-based clustering analysis
  • Upgrade STAR aligner to 2.7.3a
  • Added ability to combine multiple attributes into one
  • Added ability to change the data node label
  • Added task to down-sampling single cells
  • Removed blank plot in data viewer
  • Improved speed and memory usage on multiple tasks
  • Bug fixes

9.0.20.0202

  • Add a separate link to the input information in the task detailed page
  • Performance improvement and bug fixes

9.0.20.0121

  • Performance improvement
  • Minor bug fixes

9.0.20.0110

  • Improved .bcl file importer for data generated from the 10X Genomics platform
  • Dot plot is integrated into the data viewer
  • Volcano plot is integrated into the data viewer
  • Enhanced configuration ability of axes ranges in data viewer plots
  • Added support for cell annotation files in .csv format
  • Changed UMAP initialize output values default settings to random from spectral
  • Minor bug fixes

9.0.19.1222

  • Improvement on the performance of data viewer
  • Improvement on the speed of hierarchical clustering task
  • Minor bug fixes

9.0.19.1213

  • Data viewer is released in this version, it is a new way to visualize data. Here are some key features:
    • Plot multiple viewers in one session
    • Data content can be selected from any data node in the same project
    • Analysis steps are recorded in each viewer session, Undo/Redo is enabled
    • Plot types are2D scatterplot, 3D scatterplot, feature histogram, feature profiles
    • Tables and text boxes can be added in data viewer
    • Data node used for axes can be different from data node used for rendering
  • Performance improvement on large projects
  • Minor bug fixes


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