bcftools或gatk或vcf-merge或plink合并vcf⽂件bcftools 见命令：bcftools merge A.vcf.gz B.vcf.gz C.vcf.gz -Oz -o ABC.vcf.gz gatk 见命令：java -jar picard.jar MergeVcfs \ I=input_variants.01.vcf \ I=input_variants.02.vcf.gz \ O=output_variants.vcf.gz vcf-merge 见命令：vcf-...
1. 解释bcftools merge命令的作用bcftools merge 命令用于将多个没有重复样品的 VCF(Variant Call Format)或 BCF(Binary Call Format)文件合并成一个包含多样品的 VCF 或 BCF 文件。该工具在处理大规模基因组数据时非常有用,特别是当需要将来自不同样本或不同研究的数据集整合在一起时。
bcftools 见命令: 1 bcftools merge A.vcf.gz B.vcf.gz C.vcf.gz -Oz -o ABC.vcf.gz 参考链接:http://vcftools.sourceforge.net/htslib.html#merge gatk 见命令: 1 2 3 4 java -jar picard.jar MergeVcfs \ I=input_variants.01.vcf \ I=input_variants.02.vcf.gz \ O=output_variants.vcf.g...
isec .. intersections of VCF/BCF files merge .. merge VCF/BCF files files from non-overlapping sample sets mpileup .. multi-way pileup producing genotype likelihoods norm .. normalize indels 对vcf中的InDel进行对齐 ## 检查SV是否和ref一一对应 bcftools norm --check-ref e --fasta-ref Sp_YY_...
BCFtools 是一款多种实用工具的集合,它可以用于处理VCF文件和二进制的BCF文件。它可以接受VCF格式、压缩的VCF格式以及BCF格式,并能自动检测输入的格式类型。在有索引文件存在的条件下,BCFtools 可以应用于所有场景,在没有索引文件存在时,BCFtools只能应用于部分场景。通常,在同时读取多个VCFs时,必须对它们建立索引和压缩...
I want to concatenate multiple .vcf.gz files from the same set of samples. I check all the .vcf.gz file and .vcf.gz.tbi files. However, it does not work. Any suggestion will be appreciated. I also attached the .vcf.gz file headers. The c...
m4 bring over autoconf etc files from samtools unchanged 5 years ago misc plot-vcfstats: exit 0 when called with -h 5 years ago plugins The --haplotype option extended and the standard -i/-e options ad… 5 years ago test Merge branch 'filter-639' into develop 5 years ago .gi...
vcfconvert.c Prepare for 64-bit positions 6年前 vcffilter.c Merge pull request #1057 from jmarshall/diagnostics 6年前 vcfgtcheck.c Prepare for 64-bit positions 6年前 vcfindex.c Clarify the meaning of the --threads option. 6年前
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bcftools 或 gatk 或 vcf-merge 或 plink 合并vcf文件 2018-07-06 15:10 −... 橙子牛奶糖 5 5426 利用vcftools比较两个vcf文件 2019-12-11 20:27 −因为最近有一项工作是比较填充准确性的,中间有用到vcftools比较两个vcf文件。 使用命令也很简单: 1 vcftools --vcf file1.snp.vcf --diff file2.sn...