Gene order scaffold assembler capable of handling multiple fragmented genomes.
GOS-ASM is a multi-genome scaffolder that works that takes as an input several gneomes some or all of which may be fragmented, (and their phylogenetic tree, when available) and performes a scaffolding of user-selected genomes based on rearrangement analysis among the supplied genomes.
For installation please refer to the Installation wiki page. GOS-ASM has been tested on Linux and OSX platforms. Windows shall work in principal, but no testing has been perfomed.
MGRA integration note
GOS-ASM allows for integraiton with MGRA software (Github repo). Please note that special GOS-ASM version of MGRA (gos-asm branch) needs to be installed separately for the integration to work.
For usage please refere to the Usage wiki page.
When using GOS-ASM in your project, please make sure to cite the following publication:
Aganezov, S., & Alekseyev, M. A. (2016, June). Multi-genome scaffold co-assembly based on the analysis of gene orders and genomic repeats. In International Symposium on Bioinformatics Research and Applications (pp. 237-249). Springer, Cham.