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Hi,
I finally got round to having a go with your code.
- I downloaded from github a zip file of the master
- I created a very basic vcf file
- downloaded gtf file from the Ensembl website
- and ran:
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Takes in a tabix file and a XML file with column names and generates a new XML file with field types populated.
Should also output a new Tabix file, with chr, start, end, ref, alt as first 5 columns …
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**vcf2bed** seems to assume only SNVs positions in a VCF file.
When I give **vcf2bed** a VCF file with INDEL positions, I only get a bed file with regions of length 1.
When I use mergeBed of bedtool…
ghuls updated
10 years ago
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bjpop updated
10 years ago
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When annotating my DB sick_kids_genome_clinic with the 6500exome file from annovar (built-in file), getting a createSQLException. Importing 1000g or the knowngene (UCSC gene) annotations is error-free…
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Migrated from [rt.perl.org#109164](https://rt-archive.perl.org/perl5/Ticket/Display.html?id=109164) (status was 'resolved')
Searchable as RT109164$
p5pRT updated
12 years ago