3.1 Genome sequencing
We first sequenced a total of ~47.3 Gb clean reads (equivalent to ~82× genome coverage) to assemble the Chinese walnut genome based on Illumina HiSeq X-Ten sequencing (Table S2). We then called a total of 62.87 Gb long reads (~118 × genome coverage) from the Chinese walnut genome using Oxford Nanopore Technology sequencing platform (Table S3). A total of 101 Gb raw data of a chromosome conformation capture (Hi-C) was produced by the Nanopore sequencing platform (~176 × genome coverage) (Table S4).