|
From: 郭梁 <zs...@16...> - 2016-09-19 22:28:21
|
Hi I have assemble paired-end RAD-seq data to be contigs. According to the practise "WGS/WES Mapping to Variant Calls - Version 1.0", the files will be manipulated by GATK. Unfortunately, GATK is extrimely time consuming for large amount of small contigs. Can I connect the small contigs to be supercontig as reference with "NNNNNNNN" as saperator. If I use the supercontig as reference, is artificial linkage would affect SNP and Indel calling in population with low depth? Or any suggestion? Thanks. |