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2
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127
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More general annotation using snpEff
genome annotation snpeff written 6 weeks ago by bwczech • 60
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3
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290
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5 follow
3
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snpEff building new database ERROR
database snpeff new written 8 weeks ago by Anastasia A. • 0 • updated 7 weeks ago by Vitis • 2.0k
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154
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Annotating Mycobacterium tuberculosis VCF file using snpEFF and aNNOVAR
annotation snpeff mtb snp annovar written 8 weeks ago by S AR • 50
2
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1
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259
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1
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several effect for one SNP annotated by SNPeff
annotation snpeff snp written 3 months ago by reza • 210
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1
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173
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1
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Annotate VCF on specific transcripts (ANN field)
vcf snpsift snpeff written 3 months ago by FGV • 100 • updated 3 months ago by Pierre Lindenbaum ♦ 117k
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266
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Downstream analysis of VCF files obtained from VarScan2
vcf wes snpeff varscan2 somatic variations written 3 months ago by Raheleh • 50
1
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1
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146
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1
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Why snpEff annotation give different names to one same gene?
mtdna snpeff written 3 months ago by MatthewP • 80 • updated 3 months ago by jared.andrews07 • 1.9k
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222
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Summary statistics of VCF annotated files (snpEff)
vcf annotation snpeff statistics written 4 months ago by bwczech • 60
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172
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"count"in the snpEFF html output
snpeff written 4 months ago by lifang5389 • 0
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280
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snpEff assigned all variants as modifier intergenic
vcf ngs snpeff written 4 months ago by bwczech • 60
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1
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389
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1
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snpEff: wrong HGVS output?
hgvs snpeff written 6 months ago by Marvin • 130 • updated 5 months ago by WouterDeCoster ♦ 37k
0
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255
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How to fetch GFF information for genome downloaded from ENA?
genome annotation snpeff snp oryza written 6 months ago by athulmenonk • 0 • updated 6 months ago by WouterDeCoster ♦ 37k
0
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2
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415
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2
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Running vcf2maf on snpeff-annotated vcfs
snpeff vcf2maf written 8 months ago by becky3.a • 0
2
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318
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0
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Identify or update refseq transcript version on snpeff
ngs snpeff refseq variant-annotation written 7 months ago by Nandini • 760
6
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2
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399
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2
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how to extract gene name for LOF (loss of function) variants
snpeff lof variants written 7 months ago by reza • 210 • updated 7 months ago by Pierre Lindenbaum ♦ 117k
1
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321
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build databses for genome using snpEff
annotation snpeff snp written 7 months ago by StudentBio • 0 • updated 7 months ago by finswimmer ♦ 11k
4
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1
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890
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5 follow
1
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more than one annotation at a locus in SnpEff output?
snpeff written 2.1 years ago by sun.nation • 120 • updated 7 months ago by jilguero888 • 10
1
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3
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3
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Issue converting VCF to MAF using snpEff annotations
maf vcf snpeff vcf2maf written 4.1 years ago by Marina Manrique • 1.3k • updated 7 months ago by sutturka • 120
2
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1
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283
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1
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SNP difference between isolates
mycobacterium tuberculosis snpeff snp written 7 months ago by sanjay.bpkihs • 0 • updated 7 months ago by Medhat ♦ 8.2k
1
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1
answer
385
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1
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How to Get only one annotation with the SnpEff annotation?
annotation variation snpeff snp written 8 months ago by mhmtgenc85 • 30 • updated 8 months ago by Pierre Lindenbaum ♦ 117k
2
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1
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220
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1
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Error building snpEff database "Transcript 'hypothetical_protein' already exists"
database snpeff build written 8 months ago by Lina F • 150 • updated 8 months ago by Pierre Lindenbaum ♦ 117k
2
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749
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Annotation with snpEFF
vcf annotation extractfields snpeff written 9 months ago by Nandini • 760 • updated 8 months ago by Biostar ♦♦ 20
0
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353
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0
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SNPEff not showing SNP
annotation forum snpeff variant snp written 10 months ago by sanjay.bpkihs • 0 • updated 9 months ago by cpad0112 ♦ 11k
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363
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I need help to create 2 SNPEFF databases (v1.01/v2.01) of Pinus taeda
snpeff written 9 months ago by nie shuai • 0 • updated 9 months ago by Biostar ♦♦ 20
5
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3
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946
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3
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number of functions is more than namber of variants in snpEff's output
next-gen snpeff snp written 24 months ago by reza • 210 • updated 9 months ago by finswimmer ♦ 11k
2
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5
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4.1k
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5
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snpEFF chr not found error bacterial genome
annotation snpeff snp written 4.2 years ago by SemiQuant • 50 • updated 10 months ago by sanjay.bpkihs • 0
2
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1
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413
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1
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Are there any working GNU parallel or similar Shell code examples on how to run Pilon, Prokka, VT and Snpeff tools on a batch of input files?
shell parallel snpeff gnu prokka written 11 months ago by england_bioinformatics_team • 20 • updated 11 months ago by jrj.healey ♦ 11k
1
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523
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How to run SNPEff jar for a batch of VCF files using GNU parallel tool?
software variant calling snpeff gnu parallel bash written 13 months ago by oxfordsoccer • 10
0
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0
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709
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0
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SnpSift doesn't show any VariantType for filtering
snpsift snpeff filtering mutations written 15 months ago by Vasu • 320 • updated 14 months ago by Biostar ♦♦ 20
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1
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916
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1
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Mutation analysis on RNAseq
next-gen snpeff mutation rna-seq snp written 2.5 years ago by Ron • 880 • updated 15 months ago by QVINTVS_FABIVS_MAXIMVS • 2.2k
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