Release date: 04.04.2022.
Added:
- Implemented depth analysis workflow.
- Implemented simple scatter plot visualization. Added precached depth data sets.
- Implemented multiple new things to support the new case study.
- Updated cluster visualization with temporal information
Changed:
- Changed some function names after upgrading Streamlit to a new version.
- Changed the way Streamlit is installed with a Docker file. Now it uses pip instead of conda.
- Removed triple dot menu above each visualization. A new saving method is implemented. Changed visualization download functionality from built-in to the in-house method.
- Changed the name of Two features scatter-plot to Two features plot, to better reflect the resulting visualization.
- Changed time heatmap default color scheme for sequential data.
- Compressed Example 2 data set for better performance.
Fixed:
- Fixed a bug that caused FileNotFoundError when the user uploaded an archived data set. Fixed multiple regressions.
- Fixed a bug present in the arrow serialization engine. Returned to legacy serialization on Streamlit.
- Fixed a bug that happens when dataframe has a column of FLoat64 type and a user wants to save a visualization of that dataframe.
- Fixed a bug with the session state that cause the front-end to hang.
- Fixed some things with pandas.describe() so that there are no more warnings.
Security:
- Upgraded Streamlit to version 1.5.1
Detailed:
- efd333f (HEAD -> master, origin/master, origin/HEAD) Changed: Updated README.md with citations and images.
- 458fce5 Changed: Updated README.md with citations and images.
- c1819c3 Changed: Updated README.md with citations and images.
- 9b611b0 Merge pull request #3 from bgruening/patch-1
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| * 601669e add bibtex - | 42817d7 Changed: Updated CITATION.cff
|/ - 92828b9 (tag: v1.0.6) Changed: Compressed Example 2 data set for better performance.
- 58aa838 Updated: Updated streamlit library.
- 19f7f16 Changed: Updated some sections of the UI after the second revision of the tool.
- a8ac63c Changed: Updated README.md
- af100e5 (tag: v1.0.5) Fixed: Fixed a bug that appeared with version bump.
- b27a314 Updated: Updated libraries to up-to-date versions.
- dd4cafb Updated: Updated libraries to up-to-date versions.
- a697ec7 Changed: Changed info text to better reflect the original data set.
- b54ae2c Changed: Changed the placement of the legend in the Time heatmap visualization from upper right to bottom.
- 25a65dd Changed: Added small visual changes where needed. Added: Added important file extension check for archived data sets. Added title to the whisker plot. Fixed: Some small bugs were fixed.
- d1afa6d Improved: Changed some example 2 parameters so that we have a consistent UI with the rest of MOVIS.
- dfce970 Added: Updated Example 1 with new data from the case study.
- 6f1c689 Improved: Added more options to Time Heatmap chart.
- cb0af84 Improved: Added more options to Time Heatmap chart.
- 66baa97 Changed: Changed preprocessed metabolomics data set to the other one available from the example 1 data set. Changed the order of omics appearance to reflect the manuscript order.
- 58b012b Improved: Updated Feature through time tooltip with color channel information.
- 160f2b1 Changed: Removed calculation of additional physico-chemical properties for metaproteomics data set for the case study.
- 051ecc3 Improved: Changed time heatmap y axis to show year and month.
- b4b38e7 Added: Added more preselected values to support case study. Completed the whole preselection process.
- 584fa89 Added: Added more preselected values to support case study. Metaproteomics clustering method is now preselected, along with the appropriate visualizations.
- 5248fd0 Added: Added more preselected values to support case study. Metaproteomics additional properties FASTA data is now preselected.
- 155b7de Added: Added more default options to support the upcoming case study. Changed: Changed data type in Time Heatmap from temporal to ordinal in order to have centered ticks.
- 380e160 Added: Started preselecting visualization and certain visualization parameters for the case study. Added multiple supporting functions for the case study.
- 4bfff06 Added: Started preselecting visualization and certain visualization parameters for the case study. Added multiple supporting functions for the case study.
- aa111e3 Changed: Changed some key_suffix parsing templates.
- 61bac1c Changed: Updated cluster visualization with temporal information. Fixed: Fixed some clustering-related bugs.
- 5ce49b8 Changed: Changed time heatmap default color scheme for sequential data.
- ed4d683 Changed: Changed time heatmap default color scheme for sequential data.
- f27d2a4 Added: Implemented case study default omics. Those omics will be used to tell a story.
- fb6bf76 Added: Implemented case study default omics. Those omics will be used to tell a story.
- a9d948e Added: Implemented multiple new things to support new case study. Fixed: Fixed some minor bugs.
- bbe054c Changed: Changed some text. Started creating case study layout.
- 998399f Added: Added precalculated metabolomics/physico-chemical data set for use case page.
- a99231b Added: Cached new transcriptomics data set for the Example 1. Added data set limit check, since we cannot visualize dataframes that are greater than 50MB or 15000 rows.
- 212e2c5 Changed: Renamed use case to case study.
- ad6c263 Changed: Time heatmap now has datetime on both axes. Other feature is encoded with color. Fixed: Fixed some things with pandas.describe() so that there are no more warnings.
- 8336a31 Changed: Time heatmap now has datetime on both axes. Other feature is encoded with color. Fixed: Fixed some things with pandas.describe() so that there are no more warnings.
- 0033817 Added: Implemented some features for the use case page.
- 7b95637 Added: Implemented simple scatter plot visualization. Added precached depth data sets.
- a00694f Added: Implemented fully depth analysis.
- d0233ba Added: Implemented depth analysis workflow.
- 2132e77 Added: Added whisker chart visualization to support new data set.
- f660627 Changed: Updated new data set names according to the documentation standard.
- 5d163b8 Added: Added new visualization (Time heatmap) type and made it available.
- 8f03842 Added: Added new visualization (Time heatmap) type and made it available.
- 67087fb Added: Implemented template functions that work with new Depth-of-coverage data sets.
- f76285a Added: Updated Example 1 script for new data.
- c671611 Added: Added paths for new Example 1 data.
- e010cbe Added: Uploaded metagenomics and metatranscriptomics depth data for Example 1.
- 7c3fb96 Changed: Adapted code according to FLAKE8 linting.
- 9637450 Added: Implemented new visualization. Still in testing phase.
- 8211b38 Fixed: Fixed a bug with session state that cause the front-end to hang. Changed: Changed the name of Two features scatter-plot to Two features plot, to better reflect the resuting visualization.
- 3673c44 Fixed: Fixed a bug with session state that cause the front-end to hang. Changed: Changed the name of Two features scatter-plot to Two features plot, to better reflect the resuting visualization.
- 50d5e07 Add: Recached examples.
- 80fdb4f Changed: Updated README with new abstract.
- 12f18ee Add: Recached examples. Fix: Fixed small bugs.
- e193559 Changed: Changed omic names for the Example 1 from 'Omic' to 'Metaomic' to better reflect the underlying data sets.
- 0b2be89 Changed: Changed omic names for the Example 1 from 'Omic' to 'Metaomic' to better reflect the underlying data sets.
- 62911fc Changed: Changed omic names for the Example 1 from 'Omic' to 'Metaomic' to better reflect the underlying data sets.
- ec51442 Improved: Updated column names for the embedded data sets.
- 32f3a4d Changed: Changed an image export method. Added multiple new functions for this functionality. Fix: Fixed a bug that happens when dataframe has a column of FLoat64 type and a user wants to save a visualization of that dataframe.
- fe21516 Changed: Changed image export libraries.
- 57ff25e Improved: Updated README with new packages.
- 96314ad Improved: Changed visualization download functionality from built-in to in-house method. Visualizations will now be downloaded using a button.
- 3419c61 Removed: Removed triple dot menu above each visualization. New saving method will soon be implemented.
- b1d2441 Changed: Data format information is now more visible and presented using expanders.
- ac146e2 Removed: Removed expanders that seperated exploration and visualization part. Expanders will now be used for showing additional text information.
- 011d22e Fix: Fixed a bug present in the arrow serialization engine. Returned to legacy serialization on streamlit. Improv: Changed some text description.
- b63e9cf Fix: Fixed a bug that caused FileNotFoundError when user uploaded an archived data set. Fixed multiple regressions.
- faf6a3b Improv: Improved certain table descriptions.
- 19e67da Add: Updated Dockerfile with python-levenshtein package. This package is needed for gensim to work properly.
- 0c6df0d Add: Updated Dockerfile with python-levenshtein package. This package is needed for gensim to work properly.
- 1ee8f4c feat (visualization): Implemented vertical ruler with a tooltip for the Feature through time visualization.