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</o:shapelayout></xml><![endif]--></head><body lang=EN-GB link=blue vlink=purple><div class=WordSection1><p class=MsoNormal>Dear developers <o:p></o:p></p><p class=MsoNormal><o:p> </o:p></p><p class=MsoNormal>I found a typo in the documentation of VEP at: <a href="http://www.ensembl.org/info/docs/tools/vep/script/vep_cache.html#pre">http://www.ensembl.org/info/docs/tools/vep/script/vep_cache.html#pre</a><o:p></o:p></p><p class=MsoNormal><o:p> </o:p></p><div style='mso-element:para-border-div;border:solid #CCCCCC 1.0pt;padding:0cm 0cm 0cm 0cm;background:#F0F0F0'><pre style='margin-bottom:12.0pt;line-height:12.0pt;background:#F0F0F0;border:none;padding:0cm'><span style='color:#555555'>wget ftp://ftp.ensembl.org/pub/release-74/fasta/homo_sapiens/dna/Homo_sapiens.GRCh27.74.dna.primary_assembly.fa.gz<o:p></o:p></span></pre><pre style='margin-bottom:12.0pt;line-height:12.0pt;background:#F0F0F0;border:none;padding:0cm'><span style='color:#555555'>gzip -d Homo_sapiens.GRCh27.74.dna.primary_assembly.fa.gz<o:p></o:p></span></pre><pre style='margin-bottom:12.0pt;line-height:12.0pt;background:#F0F0F0;border:none;padding:0cm'><span style='color:#555555'>perl variant_effect_predictor.pl -i input.vcf --offline --hgvs --fasta Homo_sapiens.GRCh27.74.dna.primary_assembly.fa<o:p></o:p></span></pre></div><p class=MsoNormal><o:p> </o:p></p><p class=MsoNormal>I believe the fasta file should be : <span style='color:#555555'>Homo_sapiens.GRCh37.74.dna.primary_assembly.fa.gz <o:p></o:p></span></p><p class=MsoNormal><span style='color:#555555'><o:p> </o:p></span></p><p class=MsoNormal><span style='color:#555555'>Best regards</span><o:p></o:p></p><p class=MsoNormal><o:p> </o:p></p><p class=MsoNormal><span style='font-size:9.0pt;font-family:"Arial","sans-serif";mso-fareast-language:EN-GB'>Duarte Molha</span><span style='mso-fareast-language:EN-GB'> <o:p></o:p></span></p><p class=MsoNormal><o:p> </o:p></p></div></body></html>