text: user2429: I'm considering purchasing the 'MyGenome' product by Veritas Genetics to analyze my genome for a project. I'd like the data to be in FASTA format, but Veritas only provides VCF data. Is it possible to convert this VCF data into FASTA format?
  
  user939: You can try gatk function FastaAlternateReferenceMaker
  java -jar GenomeAnalysisTK.jar \
     -T FastaAlternateReferenceMaker \
     -R reference.fasta \
     -o output.fasta \
     -L input.intervals \
     -V input.vcf \
     [--snpmask mask.vcf]
  
  
original_text: 2429: <p>I'm considering purchasing the 'MyGenome' product by Veritas Genetics to analyze my genome for a project. I'd like the data to be in FASTA format, but Veritas only provides VCF data. Is it possible to convert this VCF data into FASTA format?</p>
   939: <p>You can try <a href="https://software.broadinstitute.org/gatk/documentation/tooldocs/3.8-0/org_broadinstitute_gatk_tools_walkers_fasta_FastaAlternateReferenceMaker.php" rel="noreferrer">gatk</a> function <code>FastaAlternateReferenceMaker</code></p>
  
  <pre><code>java -jar GenomeAnalysisTK.jar \
     -T FastaAlternateReferenceMaker \
     -R reference.fasta \
     -o output.fasta \
     -L input.intervals \
     -V input.vcf \
     [--snpmask mask.vcf]
  </code></pre>
  