SplAdder version 1.2.1

Fixing issue with spladder entry point.

SplAdder version 1.2.0

This version is the legacy release for SplAdder running under Python 2.7.

It has the following changes relative to the last release:

• change of entry point, so it can be installed using pip
• addition of end to end test testable with pytest
• several bug fixes

SplAdder version 1.1.0

This release contains quite some improvements and bug fixes:

• improved filtering of overlapping genes (this now happens on individual junction level)
• introduced filtering option for detection of events (e.g., edge limit per gene)
• adapted structure of hdf5 files
• improved the diagnose plots for differential analysis
• added robustness when handing various input file formats
• add PSI information into the pipeline
• improved filter criteria for exon skipping events
• allow for capping the gene expression variability in differential testing to remove extreme outliers
• when making events unique over inner coordinates, the shortest version is kept (instead of the longest)
• allow for compression of BAM files into sparse representation

SplAdder version 1.0.0

This version is the first official release of SplAdder. It contains an improved bam caching and parallelization. As some of the output files are named differently, it will not work on project directories created with previous versions.

Initial Release

This is the initial release of the SplAdder project. It will serve as a representation of the current API. However, there will be 1.0.0 release in the near future that introduces changes that break the current API. While no parameters and options will be redefined, the results files from this release might not work with the 1.x.x versions.