How to extract vcf.gz and vcf.gz.tbi
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5.6 years ago

Hi everyone can somone tell me how to extract under terminal this two files

resources_broad_hg38_v0_1000G_phase1.snps.high_confidence.hg38.vcf.gz

and

resources_broad_hg38_v0_1000G_phase1.snps.high_confidence.hg38.vcf.gz.tbi
SNP sequence gene • 28k views
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To extract the gz, see http://www.htslib.org/doc/bgzip.html

To retrieve data from the associated tbi, see http://www.htslib.org/doc/tabix.html

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extract what ? the first file is a bgzip file, the second file is its' index.

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@OP: There is no point in extracting or viewing or doing any thing with .tbi. It is an index file of vcf.gz. For extracting .gz file, do gzip -d resources_broad_hg38_v0_1000G_phase1.snps.high_confidence.hg38.vcf.gz. This would extract vcf which would be larger. However, do not extract unless there is a valid reason to do so.

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