SNP.vcf

Clean reads were firstly mapped to transcripts using Bowtie2, then SNPs were called SNPs using SAMtools. Raw SNPs with a minimum depth of 4 and minimum quality of 20 were filtered out using Vcftools (Danecek et al., 2011), and SNPs clustered within 50 bp were also filtered out. SNPs were annotated u...

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Bibliographic Details
Main Authors: Tong, Guang-Xiang, Xu, Wei, Zhang, Yong-Quan, Zhang, Qing-Yu, Yin, Jia-Sheng, Kuang, Youyi
Format: Dataset
Language:unknown
Published: Dryad Digital Repository 2017
Subjects:
RNA-Seq
comparative transcript analysis
positive selection
microsatellite markers
Hucho taimen
Online Access:https://dx.doi.org/10.5061/dryad.9gd3n/7
http://datadryad.org/resource/doi:10.5061/dryad.9gd3n/7
Description
Summary:Clean reads were firstly mapped to transcripts using Bowtie2, then SNPs were called SNPs using SAMtools. Raw SNPs with a minimum depth of 4 and minimum quality of 20 were filtered out using Vcftools (Danecek et al., 2011), and SNPs clustered within 50 bp were also filtered out. SNPs were annotated using snpEFF(http://snpeff.sourceforge.net/)

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