Genome build

We have included a suite of tools including genome size survey, genetic map and Hi-C heatmap to check for quality of genome build.

Tip

Download the test dataset here.

Genome size survey

The raw sequencing data provides a way to estimate the size, ploidy, heterozygosity and repeat content of a genome, similar to GenomeScope. Let's say that you have a kmer count histogram (commonly generated by Jellyfish, or other kmer counter).

1 1281576854
2 89292133
3 21588481
4 9347716
5 5569400
6 4705214

With 1st column the frequency of kmer in the sequencing data, and 2nd column the abundance of kmer with a given frequency.

Genetic map concordance

Hi-C heatmap