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Published in 2021 at "Briefings in bioinformatics"
DOI: 10.1093/bib/bbaa227
Abstract: The triangular correlation heatmap aiming to visualize the linkage disequilibrium (LD) pattern and haplotype block structure of SNPs is ubiquitous component of population-based genetic studies. However, current tools suffered from the problem of time and…
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Keywords:
variant call;
format files;
haplotype blocks;
haplotype ... See more keywords
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Published in 2017 at "Molecular Ecology Resources"
DOI: 10.1111/1755-0998.12549
Abstract: Software to call single‐nucleotide polymorphisms or related genetic variants has converged on the variant call format (VCF) as the output format of choice. This has created a need for tools to work with VCF files.…
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Keywords:
package;
variant call;
format;
call ... See more keywords
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Published in 2022 at "F1000Research"
DOI: 10.12688/f1000research.109080.2
Abstract: In this opinion article, we discuss the formatting of files from (plant) genotyping studies, in particular the formatting of metadata in Variant Call Format (VCF) files. The flexibility of the VCF format specification facilitates its…
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Keywords:
call format;
vcf;
variant call;
plant ... See more keywords
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Published in 2022 at "PLoS Computational Biology"
DOI: 10.1371/journal.pcbi.1009123
Abstract: Since its introduction in 2011 the variant call format (VCF) has been widely adopted for processing DNA and RNA variants in practically all population studies—as well as in somatic and germline mutation studies. The VCF…
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Keywords:
format;
call format;
vcf;
variant call ... See more keywords