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1
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0
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121
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Meta-analysis of rare variant SAIGE-GENE output for WGS data
meta-analysis rare SAIGE variant
10 days ago by tacrolimus ▴ 100
0
votes
1
reply
366
views
Comment: Comment: Counting the specific number of a type of variant per sample in a multi-sample
24 days ago by tacrolimus ▴ 100
5
votes
3
replies
366
views
Counting the specific number of a type of variant per sample in a multi-sample VCF
bcftools VCF
updated 24 days ago by 152k • written 24 days ago by ▴ 100
0
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0
replies
273
views
Comment: Comment: Ascertaining whether polygenic risk score is statistically independent to a mono
12 weeks ago by tacrolimus ▴ 100
4
votes
2
replies
273
views
Ascertaining whether polygenic risk score is statistically independent to a monogenic risk
polygenic score PRS risk SAIGE
12 weeks ago by tacrolimus ▴ 100
3
votes
1
reply
262
views
Pathway analysis using rare-variant SKAT-O summary statistics
variant rare pathway analysis R
updated 3 months ago by 1.8k • written 3 months ago by ▴ 100
0
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0
replies
329
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Comment: Comment: Basic PRS question
4 months ago by tacrolimus ▴ 100
0
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1
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329
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Comment: Comment: Basic PRS question
4 months ago by tacrolimus ▴ 100
0
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4
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329
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Basic PRS question
PRS
4 months ago by tacrolimus ▴ 100
0
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0
replies
407
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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
4 months ago by tacrolimus ▴ 100
0
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2
replies
1.2k
views
Counting allele counts/frequencies from a vcf file with both cases and controls
bcftools allele count vep
updated 11 months ago by • 0 • written 2.5 years ago by ▴ 100
0
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0
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291
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Answer: Answer: Ancient DNA Analysis Fastq to vcf
12 months ago by tacrolimus ▴ 100
0
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0
replies
225
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Power calculation for a collapsing rare variant analysis
calculation SAIGE power rare variant collapsing test
12 months ago by tacrolimus ▴ 100
0
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0
replies
671
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Comment: Comment: Creating a per sample file from multi-sample vcf
14 months ago by tacrolimus ▴ 100
0
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1
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671
views
Comment: Comment: Creating a per sample file from multi-sample vcf
14 months ago by tacrolimus ▴ 100
0
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1
reply
671
views
Comment: Comment: Creating a per sample file from multi-sample vcf
14 months ago by tacrolimus ▴ 100
4
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5
replies
671
views
Creating a per sample file from multi-sample vcf
bcftools SNV SNP vcftools vcf
14 months ago by tacrolimus ▴ 100
4
votes
1
reply
399
views
Pulling out "alts" from a multisample vcf by sample ID - bcftools syntax question
bcftools vcf
16 months ago by tacrolimus ▴ 100
3
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0
replies
399
views
Answer: Answer: Pulling out "alts" from a multisample vcf by sample ID - bcftools syntax questio
16 months ago by tacrolimus ▴ 100
0
votes
0
replies
258
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Bioinformatic interrogation of non-coding variants in gVCFs
VCF gVCF non-coding
18 months ago by tacrolimus ▴ 100
0
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0
replies
255
views
Best way of visualising genetic variation for publication in a gene with many exons
graphs snv lollipop snp Visualisation
19 months ago by tacrolimus ▴ 100
0
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0
replies
562
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Comment: Comment: Count number of occurrences an annotation in a multisample vcf split into multip
19 months ago by tacrolimus ▴ 100
4
votes
2
replies
562
views
Count number of occurrences an annotation in a multisample vcf split into multiple chunks
bcftools vcf annotation
19 months ago by tacrolimus ▴ 100
0
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0
replies
724
views
Split Y-Axis of a manhattan plot in qqman (using R)
manhattan R genomics
19 months ago by tacrolimus ▴ 100
0
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0
replies
957
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Comment: C: Extract samples with alternative genotype from a multi-sample VCF
2.2 years ago by tacrolimus ▴ 100
0
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0
replies
957
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Comment: C: Extract samples with alternative genotype from a multi-sample VCF
2.2 years ago by tacrolimus ▴ 100
0
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4
replies
957
views
Extract samples with alternative genotype from a multi-sample VCF
vcf bcftools vep
updated 2.2 years ago by ★ 1.2k • written 2.2 years ago by ▴ 100
0
votes
0
replies
741
views
Adding SNP/Gene labels to a qqplot using qqman
qqman qqplot gwas R
2.2 years ago by tacrolimus ▴ 100
0
votes
0
replies
665
views
locuszoom on a HPC - LD could not be computed for SNP
locuszoom HPC bash GWAS
2.2 years ago by tacrolimus ▴ 100
0
votes
0
replies
1.3k
views
Comment: C: Filtering large VCFs by allele freqency using bcftools split-vep function
2.2 years ago by tacrolimus ▴ 100
1
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0
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1.2k
views
Comment: C: Finding unique variants by sample ID in a multisample vcf
2.4 years ago by tacrolimus ▴ 100
6
votes
2
replies
1.2k
views
Finding unique variants by sample ID in a multisample vcf
bcftools vcf SNP vep
updated 2.4 years ago by ▴ 790 • written 2.4 years ago by ▴ 100
0
votes
0
replies
570
views
Leveraging phenotype data in rare variant and GWAS analysis
SNP genome phenotype GWAS rare variant
2.6 years ago by tacrolimus ▴ 100
0
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0
replies
1.6k
views
Comment: C: Faster filtering of vcfs using split-vep over filter_vep
updated 2.9 years ago by 15k • written 2.9 years ago by ▴ 100
0
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1
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684
views
Answer: A: Extract several columns from a VCF file
updated 2.9 years ago by 37k • written 2.9 years ago by ▴ 100
0
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0
replies
684
views
Comment: A: Extract several columns from a VCF file
2.9 years ago by tacrolimus ▴ 100
1
vote
2
replies
1.6k
views
Faster filtering of vcfs using split-vep over filter_vep
VEP bcftools split-vep vcf
2.9 years ago by tacrolimus ▴ 100
3
votes
12
replies
883
views
BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a region
bcftools
3.0 years ago by tacrolimus ▴ 100
0
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0
replies
883
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
3.0 years ago by tacrolimus ▴ 100
0
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1
reply
883
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
3.0 years ago by tacrolimus ▴ 100
0
votes
0
replies
883
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
3.0 years ago by tacrolimus ▴ 100
0
votes
1
reply
883
views
Comment: C: BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a
3.0 years ago by tacrolimus ▴ 100
0
votes
0
replies
811
views
Comment: C: Creating a genotype matrix for BeviMed
3.0 years ago by tacrolimus ▴ 100
3
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2
replies
811
views
Creating a genotype matrix for BeviMed
snp bioinformatics Bayesian genome
3.0 years ago by tacrolimus ▴ 100
2
votes
2
replies
1.3k
views
Filtering large VCFs by allele freqency using bcftools split-vep function
bcftools vep split-vep
3.3 years ago by tacrolimus ▴ 100
0
votes
1
reply
1.7k
views
Comment: C: Filtering multiple single person structural variant VCF files by type of SV
3.3 years ago by tacrolimus ▴ 100
0
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1
reply
1.7k
views
Comment: C: Filtering multiple single person structural variant VCF files by type of SV
3.3 years ago by tacrolimus ▴ 100
3
votes
5
replies
1.7k
views
Filtering multiple single person structural variant VCF files by type of SV
structural variation bcftools vcf unix linux
3.3 years ago by tacrolimus ▴ 100
0
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0
replies
1.2k
views
Comment: C: Approach to structural variation analysis - case vs control
3.3 years ago by tacrolimus ▴ 100
4
votes
2
replies
1.2k
views
Approach to structural variation analysis - case vs control
Structural variation
updated 3.3 years ago by ★ 2.8k • written 3.3 years ago by ▴ 100
55 results • Page 1 of 2
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