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Comment: Comment: Merging gvcf files between Dragen and other calling tools
9 months ago by tacrolimus ▴ 150
0
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1
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1.0k
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Comment: Comment: Merging gvcf files between Dragen and other calling tools
9 months ago by tacrolimus ▴ 150
0
votes
4
replies
1.0k
views
Merging gvcf files between Dragen and other calling tools
gvcf merge bcftools
9 months ago by tacrolimus ▴ 150
1
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0
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1.6k
views
Comment: Comment: Factors affecting the size of a structural variant
2.3 years ago by tacrolimus ▴ 150
0
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0
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1.6k
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Comment: Comment: Factors affecting the size of a structural variant
2.3 years ago by tacrolimus ▴ 150
9
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5
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1.6k
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Factors affecting the size of a structural variant
CNV SV
2.3 years ago by tacrolimus ▴ 150
4
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0
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1.6k
views
Answer: Answer: Factors affecting the size of a structural variant
2.3 years ago by tacrolimus ▴ 150
1
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0
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818
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Forum: Penetrance versus heritability
penetrance heritability
2.7 years ago by tacrolimus ▴ 150
1
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0
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746
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Meta-analysis of rare variant SAIGE-GENE output for WGS data
meta-analysis rare SAIGE variant
2.8 years ago by tacrolimus ▴ 150
0
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1
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1.4k
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Comment: Comment: Counting the specific number of a type of variant per sample in a multi-sample
2.8 years ago by tacrolimus ▴ 150
5
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3
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1.4k
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Counting the specific number of a type of variant per sample in a multi-sample VCF
bcftools VCF
updated 2.8 years ago by 166k • written 2.8 years ago by ▴ 150
0
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0
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1.1k
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Comment: Comment: Ascertaining whether polygenic risk score is statistically independent to a mono
3.0 years ago by tacrolimus ▴ 150
4
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2
replies
1.1k
views
Ascertaining whether polygenic risk score is statistically independent to a monogenic risk
polygenic score PRS risk SAIGE
3.0 years ago by tacrolimus ▴ 150
3
votes
1
reply
995
views
Pathway analysis using rare-variant SKAT-O summary statistics
variant rare pathway analysis R
updated 3.0 years ago by 5.2k • written 3.0 years ago by ▴ 150
0
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0
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1.4k
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Comment: Comment: Basic PRS question
3.1 years ago by tacrolimus ▴ 150
0
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1
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1.4k
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Comment: Comment: Basic PRS question
3.1 years ago by tacrolimus ▴ 150
0
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4
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1.4k
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Basic PRS question
PRS
3.1 years ago by tacrolimus ▴ 150
0
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0
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977
views
Running a validated polygenic risk score (PRS) on a new dataset using VCF/PGEN files (in the 100K genomes project)
PRS polygenic risk score
3.2 years ago by tacrolimus ▴ 150
0
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2
replies
2.3k
views
Counting allele counts/frequencies from a vcf file with both cases and controls
bcftools allele count vep
updated 3.7 years ago by • 0 • written 5.2 years ago by ▴ 150
0
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0
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977
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Answer: Answer: Ancient DNA Analysis Fastq to vcf
3.8 years ago by tacrolimus ▴ 150
0
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0
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938
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Power calculation for a collapsing rare variant analysis
calculation SAIGE power rare variant collapsing test
3.8 years ago by tacrolimus ▴ 150
0
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0
replies
2.2k
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Comment: Comment: Creating a per sample file from multi-sample vcf
4.0 years ago by tacrolimus ▴ 150
0
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1
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2.2k
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Comment: Comment: Creating a per sample file from multi-sample vcf
4.0 years ago by tacrolimus ▴ 150
0
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1
reply
2.2k
views
Comment: Comment: Creating a per sample file from multi-sample vcf
4.0 years ago by tacrolimus ▴ 150
4
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5
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2.2k
views
Creating a per sample file from multi-sample vcf
bcftools SNV SNP vcftools vcf
4.0 years ago by tacrolimus ▴ 150
4
votes
1
reply
930
views
Pulling out "alts" from a multisample vcf by sample ID - bcftools syntax question
bcftools vcf
4.1 years ago by tacrolimus ▴ 150
3
votes
0
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930
views
Answer: Answer: Pulling out "alts" from a multisample vcf by sample ID - bcftools syntax questio
4.1 years ago by tacrolimus ▴ 150
0
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0
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705
views
Bioinformatic interrogation of non-coding variants in gVCFs
VCF gVCF non-coding
4.3 years ago by tacrolimus ▴ 150
0
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0
replies
742
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Best way of visualising genetic variation for publication in a gene with many exons
graphs snv lollipop snp Visualisation
4.3 years ago by tacrolimus ▴ 150
0
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0
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1.7k
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Comment: Comment: Count number of occurrences an annotation in a multisample vcf split into multip
4.3 years ago by tacrolimus ▴ 150
4
votes
2
replies
1.7k
views
Count number of occurrences an annotation in a multisample vcf split into multiple chunks
bcftools vcf annotation
4.3 years ago by tacrolimus ▴ 150
0
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0
replies
1.5k
views
Split Y-Axis of a manhattan plot in qqman (using R)
manhattan R genomics
4.4 years ago by tacrolimus ▴ 150
0
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0
replies
2.7k
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Comment: C: Extract samples with alternative genotype from a multi-sample VCF
4.9 years ago by tacrolimus ▴ 150
0
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0
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2.7k
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Comment: C: Extract samples with alternative genotype from a multi-sample VCF
4.9 years ago by tacrolimus ▴ 150
0
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4
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2.7k
views
Extract samples with alternative genotype from a multi-sample VCF
vcf bcftools vep
updated 4.9 years ago by ★ 1.2k • written 4.9 years ago by ▴ 150
0
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0
replies
1.4k
views
Adding SNP/Gene labels to a qqplot using qqman
qqman qqplot gwas R
5.0 years ago by tacrolimus ▴ 150
0
votes
0
replies
1.6k
views
locuszoom on a HPC - LD could not be computed for SNP
locuszoom HPC bash GWAS
5.0 years ago by tacrolimus ▴ 150
0
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0
replies
2.4k
views
Comment: C: Filtering large VCFs by allele freqency using bcftools split-vep function
5.0 years ago by tacrolimus ▴ 150
1
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0
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2.2k
views
Comment: C: Finding unique variants by sample ID in a multisample vcf
5.1 years ago by tacrolimus ▴ 150
6
votes
2
replies
2.2k
views
Finding unique variants by sample ID in a multisample vcf
bcftools vcf SNP vep
updated 5.1 years ago by ▴ 840 • written 5.1 years ago by ▴ 150
0
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0
replies
1.0k
views
Leveraging phenotype data in rare variant and GWAS analysis
SNP genome phenotype GWAS rare variant
5.3 years ago by tacrolimus ▴ 150
0
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0
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3.1k
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Comment: C: Faster filtering of vcfs using split-vep over filter_vep
updated 5.7 years ago by 16k • written 5.7 years ago by ▴ 150
0
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1
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2.4k
views
Answer: A: Extract several columns from a VCF file
updated 5.7 years ago by 45k • written 5.7 years ago by ▴ 150
0
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0
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2.4k
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Comment: A: Extract several columns from a VCF file
5.7 years ago by tacrolimus ▴ 150
1
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2
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3.1k
views
Faster filtering of vcfs using split-vep over filter_vep
VEP bcftools split-vep vcf
5.7 years ago by tacrolimus ▴ 150
3
votes
12
replies
2.3k
views
BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a region
bcftools
5.7 years ago by tacrolimus ▴ 150
0
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0
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2.3k
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Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
5.7 years ago by tacrolimus ▴ 150
0
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1
reply
2.3k
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
5.7 years ago by tacrolimus ▴ 150
0
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0
replies
2.3k
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
5.7 years ago by tacrolimus ▴ 150
0
votes
1
reply
2.3k
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
5.7 years ago by tacrolimus ▴ 150
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