Anton Korobeynikov
Anton Korobeynikov
@alexweisberg Layout could be loaded / saved in https://github.com/asl/BandageNG/releases/tag/v2022.06 Saving the whole state is a bit problematic, as I already written. However, we will try to ensure custom colors /...
Custom colors, labels and other tags are now supported for load. So, at least some parts could be "emulated".
@abueg Thanks a lot! Apparently you can make PR for wiki: https://docs.github.com/en/communities/documenting-your-project-with-wikis/adding-or-editing-wiki-pages#adding-or-editing-wiki-pages-locally
Have you tried to regulate node length? E.g. length per Mbp in the Settings
Do you have any issues with building using straight cmake invocation (as shown in README)?
Well, surprisingly enough, the internal storage of gfatools is quite efficient (as it's essentially the parsed GFA) - we do use gfatools for GFA parsing in SPAdes is it works...
@ekg It seems that gbwtgraph is not quite suitable as a generic graph interface. Especially the following treatment of GFAs: ``` Overlaps, containments, and tags are ignored. Links are induced...
#17 Replaced old regexp-based GFA parser with one from GFA tools. Significant speedup was achieved on this step
https://github.com/asl/Bandage/pull/33 Added stream-oriented GFA parser with almost zero copies in the most cases. As a result of all recent changes the memory consumption and runtime dropped 5x-10x depending on the...
I doubt Bandage is ready for huge change of internal representation due to ways how's everything is written and done inside (though patches are surely welcome). That said, the recent...