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Comment: Comment: Factors affecting the size of a structural variant
9 months ago by tacrolimus ▴ 140
0
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0
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884
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Comment: Comment: Factors affecting the size of a structural variant
9 months ago by tacrolimus ▴ 140
9
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5
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884
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Factors affecting the size of a structural variant
CNV SV
9 months ago by tacrolimus ▴ 140
4
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0
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884
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Answer: Answer: Factors affecting the size of a structural variant
10 months ago by tacrolimus ▴ 140
1
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0
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486
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Forum: Penetrance versus heritability
penetrance heritability
14 months ago by tacrolimus ▴ 140
1
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0
replies
400
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Meta-analysis of rare variant SAIGE-GENE output for WGS data
meta-analysis rare SAIGE variant
15 months ago by tacrolimus ▴ 140
0
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1
reply
784
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Comment: Comment: Counting the specific number of a type of variant per sample in a multi-sample
16 months ago by tacrolimus ▴ 140
5
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3
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784
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Counting the specific number of a type of variant per sample in a multi-sample VCF
bcftools VCF
updated 16 months ago by 161k • written 16 months ago by ▴ 140
0
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0
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569
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Comment: Comment: Ascertaining whether polygenic risk score is statistically independent to a mono
18 months ago by tacrolimus ▴ 140
4
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2
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569
views
Ascertaining whether polygenic risk score is statistically independent to a monogenic risk
polygenic score PRS risk SAIGE
18 months ago by tacrolimus ▴ 140
3
votes
1
reply
567
views
Pathway analysis using rare-variant SKAT-O summary statistics
variant rare pathway analysis R
updated 19 months ago by 3.9k • written 19 months ago by ▴ 140
0
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0
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709
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Comment: Comment: Basic PRS question
19 months ago by tacrolimus ▴ 140
0
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1
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709
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Comment: Comment: Basic PRS question
19 months ago by tacrolimus ▴ 140
0
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4
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709
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Basic PRS question
PRS
19 months ago by tacrolimus ▴ 140
0
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0
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662
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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
20 months ago by tacrolimus ▴ 140
0
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2
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1.7k
views
Counting allele counts/frequencies from a vcf file with both cases and controls
bcftools allele count vep
updated 2.3 years ago by • 0 • written 3.7 years ago by ▴ 140
0
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0
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562
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Answer: Answer: Ancient DNA Analysis Fastq to vcf
2.3 years ago by tacrolimus ▴ 140
0
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0
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532
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Power calculation for a collapsing rare variant analysis
calculation SAIGE power rare variant collapsing test
2.3 years ago by tacrolimus ▴ 140
0
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0
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1.2k
views
Comment: Comment: Creating a per sample file from multi-sample vcf
2.5 years ago by tacrolimus ▴ 140
0
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1
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1.2k
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Comment: Comment: Creating a per sample file from multi-sample vcf
2.5 years ago by tacrolimus ▴ 140
0
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1
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1.2k
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Comment: Comment: Creating a per sample file from multi-sample vcf
2.5 years ago by tacrolimus ▴ 140
4
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5
replies
1.2k
views
Creating a per sample file from multi-sample vcf
bcftools SNV SNP vcftools vcf
2.5 years ago by tacrolimus ▴ 140
4
votes
1
reply
635
views
Pulling out "alts" from a multisample vcf by sample ID - bcftools syntax question
bcftools vcf
2.6 years ago by tacrolimus ▴ 140
3
votes
0
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635
views
Answer: Answer: Pulling out "alts" from a multisample vcf by sample ID - bcftools syntax questio
2.6 years ago by tacrolimus ▴ 140
0
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0
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424
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Bioinformatic interrogation of non-coding variants in gVCFs
VCF gVCF non-coding
2.8 years ago by tacrolimus ▴ 140
0
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0
replies
433
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Best way of visualising genetic variation for publication in a gene with many exons
graphs snv lollipop snp Visualisation
2.8 years ago by tacrolimus ▴ 140
0
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0
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989
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Comment: Comment: Count number of occurrences an annotation in a multisample vcf split into multip
2.9 years ago by tacrolimus ▴ 140
4
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2
replies
989
views
Count number of occurrences an annotation in a multisample vcf split into multiple chunks
bcftools vcf annotation
2.9 years ago by tacrolimus ▴ 140
0
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0
replies
1.1k
views
Split Y-Axis of a manhattan plot in qqman (using R)
manhattan R genomics
2.9 years ago by tacrolimus ▴ 140
0
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0
replies
1.7k
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Comment: C: Extract samples with alternative genotype from a multi-sample VCF
3.5 years ago by tacrolimus ▴ 140
0
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0
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1.7k
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Comment: C: Extract samples with alternative genotype from a multi-sample VCF
3.5 years ago by tacrolimus ▴ 140
0
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4
replies
1.7k
views
Extract samples with alternative genotype from a multi-sample VCF
vcf bcftools vep
updated 3.5 years ago by ★ 1.2k • written 3.5 years ago by ▴ 140
0
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0
replies
1.0k
views
Adding SNP/Gene labels to a qqplot using qqman
qqman qqplot gwas R
3.5 years ago by tacrolimus ▴ 140
0
votes
0
replies
1.1k
views
locuszoom on a HPC - LD could not be computed for SNP
locuszoom HPC bash GWAS
3.5 years ago by tacrolimus ▴ 140
0
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0
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1.8k
views
Comment: C: Filtering large VCFs by allele freqency using bcftools split-vep function
3.5 years ago by tacrolimus ▴ 140
1
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0
replies
1.6k
views
Comment: C: Finding unique variants by sample ID in a multisample vcf
3.7 years ago by tacrolimus ▴ 140
6
votes
2
replies
1.6k
views
Finding unique variants by sample ID in a multisample vcf
bcftools vcf SNP vep
updated 3.7 years ago by ▴ 830 • written 3.7 years ago by ▴ 140
0
votes
0
replies
751
views
Leveraging phenotype data in rare variant and GWAS analysis
SNP genome phenotype GWAS rare variant
3.8 years ago by tacrolimus ▴ 140
0
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0
replies
2.2k
views
Comment: C: Faster filtering of vcfs using split-vep over filter_vep
updated 4.2 years ago by 16k • written 4.2 years ago by ▴ 140
0
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1
reply
1.3k
views
Answer: A: Extract several columns from a VCF file
updated 4.2 years ago by 43k • written 4.2 years ago by ▴ 140
0
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0
replies
1.3k
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Comment: A: Extract several columns from a VCF file
4.2 years ago by tacrolimus ▴ 140
1
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2
replies
2.2k
views
Faster filtering of vcfs using split-vep over filter_vep
VEP bcftools split-vep vcf
4.2 years ago by tacrolimus ▴ 140
3
votes
12
replies
1.3k
views
BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a region
bcftools
4.3 years ago by tacrolimus ▴ 140
0
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0
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1.3k
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
4.3 years ago by tacrolimus ▴ 140
0
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1
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1.3k
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
4.3 years ago by tacrolimus ▴ 140
0
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0
replies
1.3k
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
4.3 years ago by tacrolimus ▴ 140
0
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1
reply
1.3k
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
4.3 years ago by tacrolimus ▴ 140
0
votes
0
replies
1.2k
views
Comment: C: Creating a genotype matrix for BeviMed
4.3 years ago by tacrolimus ▴ 140
3
votes
2
replies
1.2k
views
Creating a genotype matrix for BeviMed
snp genome Bayesian
updated 11 months ago by 43k • written 4.3 years ago by ▴ 140
2
votes
2
replies
1.8k
views
Filtering large VCFs by allele freqency using bcftools split-vep function
bcftools vep split-vep
4.5 years ago by tacrolimus ▴ 140
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