SVGen is a tool with an extensive range of options to simulate germline and somatic SVs of various types and from short and long read sequencing platforms. The output from SVGen include BED files with SV regions, FASTA files with the simulated genome sequence and FASTQ files for short or long reads.
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LA Lima, H Yang, C Dong, K Wang.
SVGen: Simulation of structural variants in next-generation sequencing data.