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9
votes
5
replies
626
views
Factors affecting the size of a structural variant
CNV SV
8 weeks ago by tacrolimus ▴ 140
1
vote
0
replies
246
views
Meta-analysis of rare variant SAIGE-GENE output for WGS data
meta-analysis rare SAIGE variant
7 months ago by tacrolimus ▴ 140
5
votes
3
replies
569
views
Counting the specific number of a type of variant per sample in a multi-sample VCF
bcftools VCF
updated 8 months ago by 157k • written 8 months ago by ▴ 140
4
votes
2
replies
402
views
Ascertaining whether polygenic risk score is statistically independent to a monogenic risk
polygenic score PRS risk SAIGE
10 months ago by tacrolimus ▴ 140
3
votes
1
reply
411
views
Pathway analysis using rare-variant SKAT-O summary statistics
variant rare pathway analysis R
updated 11 months ago by 3.3k • written 11 months ago by ▴ 140
0
votes
4
replies
504
views
Basic PRS question
PRS
11 months ago by tacrolimus ▴ 140
0
votes
0
replies
528
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
12 months ago by tacrolimus ▴ 140
0
votes
2
replies
1.4k
views
Counting allele counts/frequencies from a vcf file with both cases and controls
bcftools allele count vep
updated 19 months ago by • 0 • written 3.1 years ago by ▴ 140
0
votes
0
replies
380
views
Power calculation for a collapsing rare variant analysis
calculation SAIGE power rare variant collapsing test
20 months ago by tacrolimus ▴ 140
4
votes
5
replies
929
views
Creating a per sample file from multi-sample vcf
bcftools SNV SNP vcftools vcf
22 months ago by tacrolimus ▴ 140
4
votes
1
reply
513
views
Pulling out "alts" from a multisample vcf by sample ID - bcftools syntax question
bcftools vcf
23 months ago by tacrolimus ▴ 140
0
votes
0
replies
335
views
Bioinformatic interrogation of non-coding variants in gVCFs
VCF gVCF non-coding
2.1 years ago by tacrolimus ▴ 140
0
votes
0
replies
342
views
Best way of visualising genetic variation for publication in a gene with many exons
graphs snv lollipop snp Visualisation
2.2 years ago by tacrolimus ▴ 140
4
votes
2
replies
767
views
Count number of occurrences an annotation in a multisample vcf split into multiple chunks
bcftools vcf annotation
2.2 years ago by tacrolimus ▴ 140
0
votes
0
replies
979
views
Split Y-Axis of a manhattan plot in qqman (using R)
manhattan R genomics
2.2 years ago by tacrolimus ▴ 140
0
votes
4
replies
1.3k
views
Extract samples with alternative genotype from a multi-sample VCF
vcf bcftools vep
updated 2.8 years ago by ★ 1.2k • written 2.8 years ago by ▴ 140
0
votes
0
replies
876
views
Adding SNP/Gene labels to a qqplot using qqman
qqman qqplot gwas R
2.8 years ago by tacrolimus ▴ 140
0
votes
0
replies
893
views
locuszoom on a HPC - LD could not be computed for SNP
locuszoom HPC bash GWAS
2.8 years ago by tacrolimus ▴ 140
6
votes
2
replies
1.4k
views
Finding unique variants by sample ID in a multisample vcf
bcftools vcf SNP vep
updated 3.0 years ago by ▴ 810 • written 3.0 years ago by ▴ 140
0
votes
0
replies
657
views
Leveraging phenotype data in rare variant and GWAS analysis
SNP genome phenotype GWAS rare variant
3.2 years ago by tacrolimus ▴ 140
1
vote
2
replies
1.9k
views
Faster filtering of vcfs using split-vep over filter_vep
VEP bcftools split-vep vcf
3.5 years ago by tacrolimus ▴ 140
3
votes
12
replies
1.1k
views
BCFTOOLS: One-liner to get individuals with more than one heterozygote call in a region
bcftools
3.6 years ago by tacrolimus ▴ 140
3
votes
2
replies
961
views
Creating a genotype matrix for BeviMed
snp genome Bayesian
updated 3 months ago by 40k • written 3.7 years ago by ▴ 140
2
votes
2
replies
1.6k
views
Filtering large VCFs by allele freqency using bcftools split-vep function
bcftools vep split-vep
3.9 years ago by tacrolimus ▴ 140
3
votes
5
replies
2.1k
views
Filtering multiple single person structural variant VCF files by type of SV
structural variation bcftools vcf unix linux
3.9 years ago by tacrolimus ▴ 140
4
votes
2
replies
1.3k
views
Approach to structural variation analysis - case vs control
Structural variation
updated 3.9 years ago by ★ 2.9k • written 3.9 years ago by ▴ 140
6
votes
8
replies
1.4k
views
Filtering a multi-person structural variant VCF file by type of SV
bcftools vcf SV
updated 4.0 years ago by 157k • written 4.0 years ago by ▴ 140
27 results • Page 1 of 1
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