Question: Which database can be used to identify canonical splice site altering for ANNOVAR?
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gravatar for Shicheng Guo
15 months ago by
Shicheng Guo8.3k
Shicheng Guo8.3k wrote:

Hi All,

Which database can be used for ANNOVAR to identify canonical splice site altering? I find ANNOVAR can identify stop-gain and stop-lost very easily. However, I didn't find any database for ANNOVAR to identify canonical splice site altering.

Thanks.

table_annovar.pl ./annovar/gnomad.exomes.r2.1.sites.chr22.rec.vcf.avinput ~/annovar/humandb/ --thread 4 -buildver hg19 --csvout -out ./annovar/chr22 -remove -protocol refGene,dbnsfp33a,gwasCatalog,wgRna,targetScanS,tfbsConsSites -operation gx,f,r,r,r,r -nastring . -otherinfo -polish -xref ~/humandb/gene_fullxref.txt
splice site annovar • 319 views
ADD COMMENTlink modified 15 months ago • written 15 months ago by Shicheng Guo8.3k
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