annotate test-data/test_rmEff.vcf @ 8:5fab4f81391d draft default tip

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/snpsift/snpsift commit df8a21df77acffe40c0bc0fe0409ca1b529cd7fc"
author iuc
date Sat, 11 Sep 2021 07:17:51 +0000
parents 9e8280e19338
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
9e8280e19338 Uploaded
iuc
parents:
diff changeset
1 ##fileformat=VCFv4.1
9e8280e19338 Uploaded
iuc
parents:
diff changeset
2 ##samtoolsVersion=0.1.18 (r982:295)
9e8280e19338 Uploaded
iuc
parents:
diff changeset
3 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Raw read depth">
9e8280e19338 Uploaded
iuc
parents:
diff changeset
4 ##SnpEffVersion="3.5 (build 2014-02-12), by Pablo Cingolani"
9e8280e19338 Uploaded
iuc
parents:
diff changeset
5 ##SnpEffCmd="SnpEff -i vcf -o vcf -upDownStreamLen 5000 -spliceSiteSize 1 -stats /Users/jj/gxt/gxt/database/files/004/dataset_4998.dat GRCh37.71 /Users/jj/gxt/gxt/database/files/004/dataset_4996.dat "
9e8280e19338 Uploaded
iuc
parents:
diff changeset
6 ##INFO=<ID=EFF,Number=.,Type=String,Description="Predicted effects for this variant.Format: 'Effect ( Effect_Impact | Functional_Class | Codon_Change | Amino_Acid_Change| Amino_Acid_length | Gene_Name | Transcript_BioType | Gene_Coding | Transcript_ID | Exon_Rank | Genotype_Number [ | ERRORS | WARNINGS ] )' ">
9e8280e19338 Uploaded
iuc
parents:
diff changeset
7 #CHROM POS ID REF ALT QUAL FILTER INFO
9e8280e19338 Uploaded
iuc
parents:
diff changeset
8 chr4 100239319 rs1229984 T C 94.3 . DP=29
9e8280e19338 Uploaded
iuc
parents:
diff changeset
9 chr12 32491626 rs1471909 G A 124.0 . DP=22
9e8280e19338 Uploaded
iuc
parents:
diff changeset
10 chrX 153010066 rs11803 C T 73.8 . DP=34