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VEP - gnomAD v3 (hg38) annotation AF
vep hg38 gnomad annotation written 13 days ago by cocchi.e89 • 90
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1
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177
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1
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Gnomad genome vs Gnomad exom (extremely rare Ref case)
gnomad snp written 29 days ago by Eugene A • 80
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1
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162
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1
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Quickly get allele frequencies from Gnomad
allele freq ngs gnomad written 6 weeks ago by Floydian_slip • 130
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176
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How to change variant IDs in plink files?
id plink gnomad written 9 weeks ago by kraincimages • 10 • updated 9 weeks ago by zx8754 ♦ 9.6k
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5 follow
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gnomAD: query utilitites
gnomad written 17 months ago by bsmith030465 • 150 • updated 9 weeks ago by r-ninja • 0
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[GNOMAD v2]How to count the number of heterozygous individuals
genome heterozygous individuals gnomad snp written 4 months ago by leeray00151 • 10 • updated 10 weeks ago by scrap • 0
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Formula of LOEUF: loss-of-function observed/expected upper bound fraction
plof gnomad loeuf constraint gevir written 12 weeks ago by Shicheng Guo • 8.3k
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ANNOVAR issue annotating vcf
annover variant gnomad written 3 months ago by brismiller • 40
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131
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gnomAD Structural Variants pipeline usage
sv pipeline gnomad talkowski-lab written 3 months ago by cocchi.e89 • 90
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176
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1
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gnoMAD specific mutation allele position in gnoMAD
gnomad written 4 months ago by dshdixit • 10 • updated 4 months ago by finswimmer ♦ 13k
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VEP and gnomAD AF inconsistencies
ensembl vep gnomad af dbnsfp written 4 months ago by cocchi.e89 • 90 • updated 4 months ago by Ben_Ensembl • 1.6k
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gnomAD reports variants with "NA" allele count and allele frequency
vcf snps gnomad written 4 months ago by j.lunger18 • 10
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177
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Download non-cancer subset from gnomAD
vcf variants snv mutations gnomad written 5 months ago by j.lunger18 • 10
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vcfanno: issues to annotate VCF with gnomAD r3.0
vcfanno gnomad written 6 months ago by Nicolas Rosewick ♦ 9.1k • updated 6 months ago by RamRS ♦ 30k
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LOFTEE citation/ publication
ensembl loftee gnomad citation written 7 months ago by brismiller • 40 • updated 7 months ago by Kevin Blighe ♦ 66k
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267
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VEP not returning gnomAD AF
vep gnomad written 7 months ago by michal.inbar • 0 • updated 7 months ago by Ben_Ensembl • 1.6k
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Does GNOMAD use all LOFTEE LoF filters?
ensembl lof vep gnomad loftee written 7 months ago by brismiller • 40 • updated 7 months ago by RamRS ♦ 30k
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"gnomad_allele" field in new VEP
vep gnomad written 8 months ago by ori.inbar • 10 • updated 8 months ago by Emily_Ensembl ♦ 21k
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Any changes to the frequencies of gnomAD v2.1 liftover ?
hg38 gnomad liftovert hg19 written 8 months ago by δΉ™ • 160
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187
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sequencing coverage information: Trying to understand the data format
coverage gnomad written 8 months ago by mito • 10
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258
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GNOMAD exome vcf field missing? number of hemizygous individuals
exome hemizygous gnomad written 8 months ago by brismiller • 40 • updated 8 months ago by rbagnall • 1.7k
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How to convert vcf.bgz to vcf.gz?
vcf bgz gz gnomad written 8 months ago by ja4123 • 0 • updated 8 months ago by Pierre Lindenbaum ♦ 130k
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Extract gnomad AF for specific position and REF/ALT allele with R
R allele frequency gnomad af annotation written 18 months ago by Nicolas Rosewick ♦ 9.1k
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7 follow
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How to extract gnomad exomes bgz
bgz gnomad written 2.4 years ago by stanedav • 40 • updated 10 months ago by janapet • 0
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Extract variants from genomic range from gnomAD GRCh38
genome exome gnomad variants written 11 months ago by j.lunger18 • 10
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Missing SNP in gnomAD hg38 liftover vcfs
gnomad snp written 12 months ago by Nicolas Rosewick ♦ 9.1k
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Import VCF from GnomAD
vcf path gnomad written 12 months ago by j.lunger18 • 10 • updated 12 months ago by Brice Sarver • 3.5k
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How extract data from gnomAD for some genes?
data gnomad variants written 12 months ago by star • 240
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Extrapolating allele frequencies from gnomad
allele frequency gnomad written 13 months ago by oakhamwolf • 0
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How to calculate "expected loss-of-function variants" for a gene
lof o/e gnomad written 15 months ago by Shicheng Guo • 8.3k • updated 14 months ago by Biostar ♦♦ 20
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