v1.0.5

Fixed bugs

• _lift_granges now accounts for no granges lifted. It catches EmptyAnnotation and creates an empty GenomicRangesList instead.

v1.0.4

Fixed bugs

• Accounted for multiple ranges with the same name in annotate_orthologs

Changed behaviour

• joinchar is ";" instead of "," for .tsv files.

v1.0.3

Bug fixes

• Fixed incorrect ortholog strand assigment for "-" query RNAs.

Improvements

• Provided more specific names for subject ranges: insignificant, significant, bestSignificant.
• Added annotations for all types of subject ranges.
• Made a folder for all annotation files named "annotation_files".

v1.0.2

Improvements:

• Ortholog annotation is strand-specific.
• Jaccard index, overlap coefficient for orthologs and their annotations.
• Set of background ranges is refined via exclusion of regions that overlap even one of the lifted query ranges.
• Summary files in align_files and build_files are more verbose.
• Report q-values of retained HSP of built orthologs.

v1.0.1

A hotfix.
Fixed seeds in certain methods to provide deterministic background compositon and stable results.

v1.0.0

The first production ready version of the ortho2align tool.

v1.0.0-rc1

A release candidate of the first production ready version.

Release v0.9

The first prerelease for github testing purposes.