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0
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0
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209
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Comment: Comment: Can't figure out plink --sample-diff
21 days ago by curious ▴ 750
0
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2
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209
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Can't figure out plink --sample-diff
plink
21 days ago by curious ▴ 750
0
votes
0
replies
382
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Comment: Comment: Why do these two variants appear to result in the same amino acid change when an
3 months ago by curious ▴ 750
3
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2
replies
382
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Why do these two variants appear to result in the same amino acid change when annotated by snpeff, but are annotated differently in clinvar
clinvar
3 months ago by curious ▴ 750
1
vote
1
reply
294
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Is there a way to map Medgen # to OMIM # programmatically?
medgen omim
updated 3 months ago by 161k • written 3 months ago by ▴ 750
0
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1
reply
399
views
Where do these snpeff annotation come from?
snpeff
updated 5 months ago by 100k • written 5 months ago by ▴ 750
0
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4
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1.2k
views
Is there a way to get a list of all homogygous sites for each sample with plink (regardless if they are in a run)
plink
updated 7 months ago by 10k • written 7 months ago by ▴ 750
0
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1
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1.2k
views
Comment: Comment: Is there a way to get a list of all homogygous sites for each sample with plink
7 months ago by curious ▴ 750
1
vote
1
reply
441
views
bcftools update ID keeping only string after ';'
bcftools
updated 8 months ago by 161k • written 8 months ago by ▴ 750
0
votes
1
reply
614
views
Comment: Comment: Is this a valid allele in a vcf?
9 months ago by curious ▴ 750
0
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1
reply
614
views
Comment: Comment: Is this a valid allele in a vcf?
9 months ago by curious ▴ 750
0
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5
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614
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Is this a valid allele in a vcf?
vcf
updated 9 months ago by 43k • written 9 months ago by ▴ 750
0
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1
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664
views
Comment: Comment: Is it possible to interpret HGVS without transcript version number?
9 months ago by curious ▴ 750
0
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1
reply
664
views
Comment: Comment: Is it possible to interpret HGVS without transcript version number?
9 months ago by curious ▴ 750
0
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0
replies
387
views
Comment: Comment: jannovar download problem
9 months ago by curious ▴ 750
0
votes
6
replies
664
views
Is it possible to interpret HGVS without transcript version number?
hgvs
updated 9 months ago by ★ 1.2k • written 9 months ago by ▴ 750
0
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2
replies
387
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jannovar download problem
jannovar
9 months ago by curious ▴ 750
0
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0
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516
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Comment: Comment: Why does this stop gained result in a longer protein than the canonical version
9 months ago by curious ▴ 750
2
votes
2
replies
516
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Why does this stop gained result in a longer protein than the canonical version
ensembl
updated 9 months ago by 43k • written 9 months ago by ▴ 750
2
votes
2
replies
1.4k
views
Download VCF for dbsnp 156?
dbsnp
updated 10 months ago by 141k • written 10 months ago by ▴ 750
0
votes
1
reply
454
views
Any way to get bcftools to query up to but not including the last site given in a region query
bcftools
updated 10 months ago by 161k • written 10 months ago by ▴ 750
4
votes
3
replies
1.0k
views
What does canonical transcript mean in the context of VEP
vep
updated 11 months ago by 4.2k • written 11 months ago by ▴ 750
0
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0
replies
479
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Comment: Comment: How to check the imputation quality of genotyping files?
11 months ago by curious ▴ 750
0
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0
replies
761
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Comment: Comment: Low SNP Overlap with Michigan 1KG and TopMed reference panel
12 months ago by curious ▴ 750
0
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0
replies
687
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Comment: Comment: viewing hgvs in genome data viewer
12 months ago by curious ▴ 750
0
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1
reply
687
views
Comment: Comment: viewing hgvs in genome data viewer
12 months ago by curious ▴ 750
1
vote
4
replies
687
views
viewing hgvs in genome data viewer
ncbi hgvs clinvar
12 months ago by curious ▴ 750
0
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0
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309
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Trying to understand the difference between between these two HGVS
hgvs
15 months ago by curious ▴ 750
2
votes
2
replies
776
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drop duplicate insertion deletions in VCF at same position while keeping one
bcftools
15 months ago by curious ▴ 750
0
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0
replies
776
views
Comment: Comment: drop duplicate insertion deletions in VCF at same position while keeping one
15 months ago by curious ▴ 750
2
votes
1
reply
860
views
In GWAS what is the point of regressing a quantitative phenotype on covariates first and taking the residuals?
gwas
updated 15 months ago by 3.9k • written 15 months ago by ▴ 750
1
vote
1
reply
490
views
calculating the allele frequency of a gene deletion and duplication
cnv
updated 15 months ago by ★ 2.9k • written 15 months ago by ▴ 750
5
votes
11
replies
2.2k
views
fast way to get last position in a large indexed VCF?
bcftools
updated 19 months ago by 100k • written 19 months ago by ▴ 750
0
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1
reply
2.2k
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Comment: Comment: fast way to get last position in a large indexed VCF?
19 months ago by curious ▴ 750
0
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1
reply
2.2k
views
Comment: Comment: fast way to get last position in a large indexed VCF?
19 months ago by curious ▴ 750
0
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0
replies
802
views
Comment: Comment: is it possible to calculate MAF from DS instead of GT when using bcftools +fill-
20 months ago by curious ▴ 750
0
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0
replies
802
views
Comment: Comment: is it possible to calculate MAF from DS instead of GT when using bcftools +fill-
20 months ago by curious ▴ 750
0
votes
3
replies
802
views
is it possible to calculate MAF from DS instead of GT when using bcftools +fill-tags?
bcftools
20 months ago by curious ▴ 750
1
vote
0
replies
398
views
Does genomic control have a valid interpretation when there are no genome-wide significant hits
genomic control statistics
21 months ago by curious ▴ 750
0
votes
0
replies
382
views
am I understanding scaled CADD scores correct?
cadd
23 months ago by curious ▴ 750
2
votes
1
reply
500
views
Using snpsift to filter VCF by sample
snpsift
updated 2.0 years ago by 161k • written 2.0 years ago by ▴ 750
0
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0
replies
389
views
Does larger standardized PRS value always means higher risk?
prs
2.1 years ago by curious ▴ 750
0
votes
0
replies
1.2k
views
Comment: Comment: grep a vcf
2.2 years ago by curious ▴ 750
0
votes
0
replies
551
views
Converting observed heritability to liability scale, how to get standard error?
hertiability greml ldsc
2.2 years ago by curious ▴ 750
0
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0
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1.1k
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Comment: Comment: keep samples that carry non-reference allele in list of variants snpeff/snpsift
2.3 years ago by curious ▴ 750
0
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1
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1.1k
views
Comment: Comment: keep samples that carry non-reference allele in list of variants snpeff/snpsift
2.3 years ago by curious ▴ 750
3
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4
replies
1.1k
views
keep samples that carry non-reference allele in list of variants snpeff/snpsift
snpeff snpsift bcftools
2.3 years ago by curious ▴ 750
0
votes
1
reply
727
views
subset vcf to keep only samples heterozygous or homozygous for the alternate allele of a given variant
bcftools
updated 2.3 years ago by ★ 1.1k • written 2.3 years ago by ▴ 750
1
vote
1
reply
1.4k
views
Answer: Answer: Haploview.jar
2.4 years ago by curious ▴ 750
0
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0
replies
3.3k
views
Comment: Comment: Applying Machine Learning on vcf file
2.4 years ago by curious ▴ 750
295 results • Page 1 of 6
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