This tool extracts heterozygous kmer pairs from kmer count databases and performs gymnastics with them. We are able to disentangle genome structure by comparing the sum of kmer pair coverages (CovA + CovB) to their relative coverage (CovB / (CovA + CovB)). Such an approach also allows us to analyze obscure genomes with duplications, various ploidy levels, etc.
module spider smudgeplot to find out what environment modules are available for this application.
- HPC_SMUDGEPLOT_DIR - installation directory
- HPC_SMUDGEPLOT_BIN - executable directory
If you publish research that uses smudgeplot you have to cite it as follows: