Extracting Novel SNPs from VEP output
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7.6 years ago

I run command based VEP for annotation. I want to extract only NOVEL SNPSs according to rs ID in first column. How I can do this.

1_17538_C/T     1:17538 T       ENSG00000278267 ENST00000619216 Transcript      upstream_gene_variant   -
1_17538_C/T     1:17538 T       ENSG00000223972 ENST00000456328 Transcript      downstream_gene_variant -
1_17538_C/T     1:17538 T       ENSG00000227232 ENST00000488147 Transcript
1_17538_C/T     1:17538 T       ENSG00000223972 ENST00000450305 Transcript      downstream_gene_variant -
rs201057270     1:17614 A       ENSG00000278267 ENST00000619216 Transcript      upstream_gene_variant   -       - rs201057270     1:17614 A       ENSG00000223972 ENST00000456328 Transcript      downstream_gene_variant -     rs201057270     1:17614 A       ENSG00000227232 ENST00000488147 Transcript
rs201057270     1:17614 A       ENSG00000223972 ENST00000450305 Transcript      downstream_gene_variant -
1_19342_G/A     1:19342 A       ENSG00000278267 ENST00000619216 Transcript      upstream_gene_variant   -
1_19342_G/A     1:19342 A       ENSG00000223972 ENST00000456328 Transcript      downstream_gene_variant -
1_19342_G/A     1:19342 A       ENSG00000227232 ENST00000488147 Transcript
snp • 1.6k views
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3
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7.6 years ago
grep -v '^rs'
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Many Thanks

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