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vatlab / vat-docs

Documentation for Variant Tools.
https://vatlab.github.io/vat/
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Error in update.md #30

Open jma7 opened 4 years ago

jma7 commented 4 years ago

In /Documentation/vtools_commands/update.md

% perl -S annotate_variation.pl ann.in humandb/ --buildver hg38

NOTICE: The --geneanno operation is set to ON by default
NOTICE: Output files are written to ann.in.variant_function, ann.in.exonic_variant_function
Error: The gene annotation database humandb/hg38_refGene.txt does not exist. Please use 'annotate_variation.pl --downdb refGene humandb -build hg38' to download the database.
jma7 commented 4 years ago 
vtools select variant 'dbSNP.func = "intron"' --output dbSNP.name dbSNP.func > dbSNP.info

func field is not in dbSNP-hg38.