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[GNOMAD v2]How to count the number of heterozygous individuals
genome heterozygous individuals gnomad snp written 4 days ago by leeray00151 • 10
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1
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118
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1
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gnoMAD specific mutation allele position in gnoMAD
gnomad written 11 days ago by dshdixit • 10 • updated 8 days ago by finswimmer ♦ 13k
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1
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VEP and gnomAD AF inconsistencies
ensembl vep gnomad af dbnsfp written 11 days ago by cocchi.e89 • 50 • updated 9 days ago by Ben_Ensembl • 1.4k
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gnomAD reports variants with "NA" allele count and allele frequency
vcf snps gnomad written 25 days ago by j.lunger18 • 10
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105
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Download non-cancer subset from gnomAD
vcf variants snv mutations gnomad written 5 weeks ago by j.lunger18 • 10
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118
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1
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vcfanno: issues to annotate VCF with gnomAD r3.0
vcfanno gnomad written 9 weeks ago by Nicolas Rosewick ♦ 8.8k • updated 9 weeks ago by RamRS ♦ 27k
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91
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LOFTEE citation/ publication
ensembl loftee gnomad citation written 12 weeks ago by brismiller • 20 • updated 12 weeks ago by Kevin Blighe ♦ 60k
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2
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161
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VEP not returning gnomAD AF
vep gnomad written 3 months ago by michal.inbar • 0 • updated 3 months ago by Ben_Ensembl • 1.4k
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Does GNOMAD use all LOFTEE LoF filters?
ensembl lof vep gnomad loftee written 3 months ago by brismiller • 20 • updated 3 months ago by RamRS ♦ 27k
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"gnomad_allele" field in new VEP
vep gnomad written 4 months ago by ori.inbar • 10 • updated 4 months ago by Emily_Ensembl ♦ 20k
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Any changes to the frequencies of gnomAD v2.1 liftover ?
hg38 gnomad liftovert hg19 written 4 months ago by badredda • 150
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1
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154
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1
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sequencing coverage information: Trying to understand the data format
coverage gnomad written 4 months ago by mito • 10
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1
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GNOMAD exome vcf field missing? number of hemizygous individuals
exome hemizygous gnomad written 4 months ago by brismiller • 20 • updated 4 months ago by rbagnall • 1.6k
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How to convert vcf.bgz to vcf.gz?
vcf bgz gz gnomad written 4 months ago by ja4123 • 0 • updated 4 months ago by Pierre Lindenbaum ♦ 128k
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Extract gnomad AF for specific position and REF/ALT allele with R
R allele frequency gnomad af annotation written 14 months ago by Nicolas Rosewick ♦ 8.8k
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7 follow
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How to extract gnomad exomes bgz
bgz gnomad written 2.1 years ago by stanedav • 40 • updated 6 months ago by janapet • 0
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Extract variants from genomic range from gnomAD GRCh38
genome exome gnomad variants written 6 months ago by j.lunger18 • 10
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456
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1
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Missing SNP in gnomAD hg38 liftover vcfs
gnomad snp written 8 months ago by Nicolas Rosewick ♦ 8.8k
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1
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430
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1
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Import VCF from GnomAD
vcf path gnomad written 8 months ago by j.lunger18 • 10 • updated 8 months ago by Brice Sarver • 3.5k
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1
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438
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1
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How extract data from gnomAD for some genes?
data gnomad variants written 8 months ago by star • 230
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Extrapolating allele frequencies from gnomad
allele frequency gnomad written 9 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 11 months ago by Shicheng Guo • 8.2k • updated 9 months ago by Biostar ♦♦ 20
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349
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ensembl VEP: gnomAD genome annotation <AF1>&<AF2>
annotation vep gnomad ensembl written 10 months ago by c.clarido • 50
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Number of samples with rare mutation per gene in gnomAD
mutation gnomad written 11 months ago by Nicolas Rosewick ♦ 8.8k
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How to predict sample ethnicty from a VCF using 1000G or gnomAD ?
vcf 1000g ethnicity snp gnomad written 11 months ago by Nicolas Rosewick ♦ 8.8k • updated 11 months ago by WouterDeCoster ♦ 43k
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What are valid VCF symbolic alternate alleles for structural variants?
vcf 1000 genomes specification gnomad sv written 11 months ago by Garrett Stevens • 0 • updated 11 months ago by John Marshall ♦ 2.0k
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729
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structural variants in gnomad and the VCF spec. Why is tabix/bcftools failing ?
vcf specification gnomad structural variant sv written 11 months ago by Pierre Lindenbaum ♦ 128k • updated 11 months ago by John Marshall ♦ 2.0k
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Can't find position in GnomAD VCF
vcf snv gnomad written 13 months ago by bzg • 40 • updated 13 months ago by zx8754 ♦ 9.2k
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356
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little discrepancies gnomAD DB vs. website
frequency genomes gnomad exomes variants written 13 months ago by cocchi.e89 • 50 • updated 13 months ago by tpoterba • 50
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Extracting summary statistics from gnomAD VCF file
vcf allele frequency gnomad sfs written 13 months ago by lom • 0 • updated 13 months ago by Pierre Lindenbaum ♦ 128k
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