使用bcftools提取 do bcftools view -S list/$sample.list /public/home/lianglunping/work/SV/453.vcf>/public/home/lianglunping/work/SV/453/$sample.vcf;done
$ bcftools view view.vcf.gz-Ou-o view.bcf -O参数指定输出文件的类型; -o参数指定输出文件的名字; u代表未经压缩的BCF文件; b代表压缩后的BCF文件; v代表未经压缩的VCF文件; z代表压缩后的VCF文件; 还可以根据样本筛选VCF文件,用法如下-s select ...
call 是bcftools查找变异的工具，它取代了bcftools 之前的view caller 用于将多个VCF/BCF文件合并为1个。常常用来将多个染色体的vcf文件合为一个；或者将snp和indel两种不同突变类型的文件合并为1个。 注意：同样用于合并vcf文件， merge 主要是将单个样本的VCF文件合并成一个多个样本的VCF文件。注意：...
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-g Compute genotype likelihoods and output them in the binary call format(BCF).-D Output per-sample read depth > 是将结果保存到samtools_result.bcf文件中 最终得到的samtools_result.bcf 是二进制文件，到此完成了call snp的第一步。得到bcf文件以后，第二步执行命令：bcftools view -cNegv ...
fprintf(stderr, "Usage: bcftools view [options] <in.vcf.gz> [region1 [...]]\n"); fprintf(stderr, "\n"); fprintf(stderr, "Output options:\n"); fprintf(stderr, " -G, --drop-genotypes drop individual genotype information (after subsetting if -s option set)\n"); fprintf...
By company size Enterprises Small and medium teams Startups Nonprofits By use case DevSecOps DevOps CI/CD View all use cases By industry Healthcare Financial services Manufacturing Government View all industries View all solutions Resources Topics AI DevOps Security Software De...
By company size Enterprises Small and medium teams Startups Nonprofits By use case DevSecOps DevOps CI/CD View all use cases By industry Healthcare Financial services Manufacturing Government View all industries View all solutions Resources Topics AI DevOps Security Software Dev...
Yes I have tried those but it still gives me the same error. When I use the bcftools view command it gives me the same error that says it can't open the file because it's not compressed with bgzip. But it can open the file because when I just runbcftools view -h file.vcf.gzit...