bcftools merge 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...
Hej! I have found a potential bug in the develomental version. I get an error message when trying to merge several vcf files with bcftools merge. I have tried the the latest source code commit b7b2a32 for the following code. However, ver...
If I give it a list of 2600 files (all with identical first 9 columns, just different final column, one sample per VCF), it fails at line 1021, with bcftools merge --file-list listvcfs -o foobar Failed to open whatever.vcf.gz: could not load index...
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-...
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...
Hi there, I'm having this problem while trying to merge a few vcfs: bcftools: thread_pool.c:552: tpool_worker: Assertion `j->p == p' failed. Aborted (core dumped)
My understanding is that the resolution of duplicate sample names is not clever enough to assign a new valid name all the time. It seems likebcftools merge --force-samplesis changing the ID ofAto2:Abut this sample already exists in the VCF causing the renaming attempt to fail. ...
Hi bcftools merge can result in the same record (as defined by CHROM, POS, REF, ALT) appearing multiple times in the output (sometimes not even on consecutive lines). It is easy to reproduce: try merging two files, the first has alt alle...
"patch": "modules/nf-core/bcftools/annotate/bcftools-annotate.diff" }, "bcftools/concat": { "branch": "master", "git_sha": "b42fec6f7c6e5d0716685cabb825ef6bf6e386b5", "git_sha": "a5ba4d59c2b248c0379b0f8aeb4e7e754566cd1f", "installed_by": ["modules"] }, "bcftools/mpileup...