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1
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201
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Forum: Penetrance versus heritability
penetrance heritability
3 months ago by tacrolimus ▴ 110
1
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0
replies
184
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Meta-analysis of rare variant SAIGE-GENE output for WGS data
meta-analysis rare SAIGE variant
4 months ago by tacrolimus ▴ 110
0
votes
1
reply
478
views
Comment: Comment: Counting the specific number of a type of variant per sample in a multi-sample
4 months ago by tacrolimus ▴ 110
5
votes
3
replies
478
views
Counting the specific number of a type of variant per sample in a multi-sample VCF
bcftools VCF
updated 4 months ago by 155k • written 4 months ago by ▴ 110
0
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0
replies
343
views
Comment: Comment: Ascertaining whether polygenic risk score is statistically independent to a mono
7 months ago by tacrolimus ▴ 110
4
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2
replies
343
views
Ascertaining whether polygenic risk score is statistically independent to a monogenic risk
polygenic score PRS risk SAIGE
7 months ago by tacrolimus ▴ 110
3
votes
1
reply
339
views
Pathway analysis using rare-variant SKAT-O summary statistics
variant rare pathway analysis R
updated 7 months ago by 2.7k • written 7 months ago by ▴ 110
0
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0
replies
419
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Comment: Comment: Basic PRS question
8 months ago by tacrolimus ▴ 110
0
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1
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419
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Comment: Comment: Basic PRS question
8 months ago by tacrolimus ▴ 110
0
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4
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419
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Basic PRS question
PRS
8 months ago by tacrolimus ▴ 110
0
votes
0
replies
457
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Running a validated polygenic risk score (PRS) on a new dataset using VCF/PGEN files (in the 100K genomes project)
PRS polygenic risk score
8 months ago by tacrolimus ▴ 110
0
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2
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1.3k
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Counting allele counts/frequencies from a vcf file with both cases and controls
bcftools allele count vep
updated 16 months ago by • 0 • written 2.8 years ago by ▴ 110
0
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0
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350
views
Answer: Answer: Ancient DNA Analysis Fastq to vcf
16 months ago by tacrolimus ▴ 110
0
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0
replies
319
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Power calculation for a collapsing rare variant analysis
calculation SAIGE power rare variant collapsing test
16 months ago by tacrolimus ▴ 110
0
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0
replies
789
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Comment: Comment: Creating a per sample file from multi-sample vcf
18 months ago by tacrolimus ▴ 110
0
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1
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789
views
Comment: Comment: Creating a per sample file from multi-sample vcf
18 months ago by tacrolimus ▴ 110
0
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1
reply
789
views
Comment: Comment: Creating a per sample file from multi-sample vcf
18 months ago by tacrolimus ▴ 110
4
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5
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789
views
Creating a per sample file from multi-sample vcf
bcftools SNV SNP vcftools vcf
18 months ago by tacrolimus ▴ 110
4
votes
1
reply
453
views
Pulling out "alts" from a multisample vcf by sample ID - bcftools syntax question
bcftools vcf
20 months ago by tacrolimus ▴ 110
3
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0
replies
453
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Answer: Answer: Pulling out "alts" from a multisample vcf by sample ID - bcftools syntax questio
20 months ago by tacrolimus ▴ 110
0
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0
replies
294
views
Bioinformatic interrogation of non-coding variants in gVCFs
VCF gVCF non-coding
22 months ago by tacrolimus ▴ 110
0
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0
replies
299
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Best way of visualising genetic variation for publication in a gene with many exons
graphs snv lollipop snp Visualisation
23 months ago by tacrolimus ▴ 110
0
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0
replies
668
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Comment: Comment: Count number of occurrences an annotation in a multisample vcf split into multip
23 months ago by tacrolimus ▴ 110
4
votes
2
replies
668
views
Count number of occurrences an annotation in a multisample vcf split into multiple chunks
bcftools vcf annotation
23 months ago by tacrolimus ▴ 110
0
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0
replies
873
views
Split Y-Axis of a manhattan plot in qqman (using R)
manhattan R genomics
23 months ago by tacrolimus ▴ 110
0
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0
replies
1.1k
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Comment: C: Extract samples with alternative genotype from a multi-sample VCF
2.5 years ago by tacrolimus ▴ 110
0
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0
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1.1k
views
Comment: C: Extract samples with alternative genotype from a multi-sample VCF
2.5 years ago by tacrolimus ▴ 110
0
votes
4
replies
1.1k
views
Extract samples with alternative genotype from a multi-sample VCF
vcf bcftools vep
updated 2.5 years ago by ★ 1.2k • written 2.5 years ago by ▴ 110
0
votes
0
replies
808
views
Adding SNP/Gene labels to a qqplot using qqman
qqman qqplot gwas R
2.5 years ago by tacrolimus ▴ 110
0
votes
0
replies
764
views
locuszoom on a HPC - LD could not be computed for SNP
locuszoom HPC bash GWAS
2.6 years ago by tacrolimus ▴ 110
0
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0
replies
1.5k
views
Comment: C: Filtering large VCFs by allele freqency using bcftools split-vep function
2.6 years ago by tacrolimus ▴ 110
1
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0
replies
1.3k
views
Comment: C: Finding unique variants by sample ID in a multisample vcf
2.7 years ago by tacrolimus ▴ 110
6
votes
2
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1.3k
views
Finding unique variants by sample ID in a multisample vcf
bcftools vcf SNP vep
updated 2.7 years ago by ▴ 810 • written 2.7 years ago by ▴ 110
0
votes
0
replies
613
views
Leveraging phenotype data in rare variant and GWAS analysis
SNP genome phenotype GWAS rare variant
2.9 years ago by tacrolimus ▴ 110
0
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0
replies
1.7k
views
Comment: C: Faster filtering of vcfs using split-vep over filter_vep
updated 3.2 years ago by 16k • written 3.3 years ago by ▴ 110
0
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1
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839
views
Answer: A: Extract several columns from a VCF file
updated 3.2 years ago by 39k • written 3.3 years ago by ▴ 110
0
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0
replies
839
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Comment: A: Extract several columns from a VCF file
3.3 years ago by tacrolimus ▴ 110
1
vote
2
replies
1.7k
views
Faster filtering of vcfs using split-vep over filter_vep
VEP bcftools split-vep vcf
3.3 years ago by tacrolimus ▴ 110
3
votes
12
replies
959
views
BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a region
bcftools
3.3 years ago by tacrolimus ▴ 110
0
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0
replies
959
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
3.3 years ago by tacrolimus ▴ 110
0
votes
1
reply
959
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
3.3 years ago by tacrolimus ▴ 110
0
votes
0
replies
959
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
3.3 years ago by tacrolimus ▴ 110
0
votes
1
reply
959
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
3.3 years ago by tacrolimus ▴ 110
0
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0
replies
883
views
Comment: C: Creating a genotype matrix for BeviMed
3.4 years ago by tacrolimus ▴ 110
3
votes
2
replies
883
views
Creating a genotype matrix for BeviMed
snp genome Bayesian
updated 2 days ago by 39k • written 3.4 years ago by ▴ 110
2
votes
2
replies
1.5k
views
Filtering large VCFs by allele freqency using bcftools split-vep function
bcftools vep split-vep
3.6 years ago by tacrolimus ▴ 110
0
votes
1
reply
1.9k
views
Comment: C: Filtering multiple single person structural variant VCF files by type of SV
3.6 years ago by tacrolimus ▴ 110
0
votes
1
reply
1.9k
views
Comment: C: Filtering multiple single person structural variant VCF files by type of SV
3.6 years ago by tacrolimus ▴ 110
3
votes
5
replies
1.9k
views
Filtering multiple single person structural variant VCF files by type of SV
structural variation bcftools vcf unix linux
3.6 years ago by tacrolimus ▴ 110
0
votes
0
replies
1.2k
views
Comment: C: Approach to structural variation analysis - case vs control
3.6 years ago by tacrolimus ▴ 110
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