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Want to Use only GRCh37 #12

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immuneAI opened this issue Jan 18, 2017 · 0 comments
Closed

Want to Use only GRCh37 #12

immuneAI opened this issue Jan 18, 2017 · 0 comments

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@immuneAI
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Hi Folks,

I want to use only GRCh37 to process my VCF file. Will --offline gives the same output for the command I'm using, find below. This taking GRCh38 cache file, How to revert this to GRCh37.

variant_effect_predictor.pl --dir_cache /reference/software/vep/ --fork 20 -i 39bc83a8-b270-488b-b236-fa0b8728c4d2.vcf --format vcf --vcf -o /mnt/lustre/working/genomeinfo/share/temp/venkatA/Analysis/VEP/39bc83a8-b270-488b-b236-fa0b8728c4d2 --symbol --dir_plugins /mnt/lustre/reference/software/vep/Plugins/ --plugin Downstream --plugin Wildtype --coding_only --buffer_size 100000
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@immuneAI