v1.2.3

Stable release of v1.2.3

v1.2.2

Same basic functionality as v1.1.10, but now with a suite of tools for genome QC, sliding windows and other viz.

v1.1.10

Updated riparian plotting, better handling of issues with synteny-constrained orthogroups, bug fixes. Some updates to parse_annotations too.

v1.1.8

Updated handling of non-standard situations. New querying tools for CNVs.

v1.1.4

GENESPACE v1.1.4 release (updated 6-March 2023)

GENESPACE v0.9.3

This is the current release of GENESPACE

Updates here include a modified riparian plot plot_riparianHits, which will eventually replace the previous plot_riparian.
The pan-genome annotation construction method has also been updated to use directed acyclic graphs generated from syntenic hits, rather than enforcing undirected cyclic graphs from orthogroups.
The plot_hits routine has been much simplified and most previous functionality has been removed due to incompatibility issues with low-contiguity genomes. Future versions will restore some of this functionality.

Minor bug fixes to parse_annotations and synteny are also included.

GENESPACE v0.8.5

GENESPACE initial production release. Synteny, basic pan-genome annotation, dotplots and riparian plots. Vignettes available for the main pipeline and riparian plots.
Note this update (29-Oct 2021) updates default parameters to more effectively trim duplicate arrays in the pan-genome and replaces the 26-Oct release with the same title.