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...
Main Authors: | , , , , , |
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Format: | Dataset |
Language: | unknown |
Published: |
Dryad Digital Repository
2017
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Subjects: | |
Online Access: | https://dx.doi.org/10.5061/dryad.9gd3n/7 http://datadryad.org/resource/doi:10.5061/dryad.9gd3n/7 |
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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