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Comment: Comment: drop duplicate insertion deletions in VCF at same position while keeping one
2.8 years ago by curious ▴ 900
2
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1
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1.5k
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In GWAS what is the point of regressing a quantitative phenotype on covariates first and taking the residuals?
gwas
updated 2.8 years ago by 5.1k • written 2.8 years ago by ▴ 900
1
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907
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calculating the allele frequency of a gene deletion and duplication
cnv
updated 2.8 years ago by ★ 3.0k • written 2.8 years ago by ▴ 900
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11
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4.3k
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fast way to get last position in a large indexed VCF?
bcftools
updated 3.1 years ago by 103k • written 3.1 years ago by ▴ 900
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4.3k
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Comment: Comment: fast way to get last position in a large indexed VCF?
3.1 years ago by curious ▴ 900
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1
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4.3k
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Comment: Comment: fast way to get last position in a large indexed VCF?
3.1 years ago by curious ▴ 900
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0
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1.4k
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Comment: Comment: is it possible to calculate MAF from DS instead of GT when using bcftools +fill-
3.2 years ago by curious ▴ 900
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1.4k
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Comment: Comment: is it possible to calculate MAF from DS instead of GT when using bcftools +fill-
3.2 years ago by curious ▴ 900
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3
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1.4k
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is it possible to calculate MAF from DS instead of GT when using bcftools +fill-tags?
bcftools
3.2 years ago by curious ▴ 900
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0
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808
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Does genomic control have a valid interpretation when there are no genome-wide significant hits
genomic control statistics
3.3 years ago by curious ▴ 900
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0
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747
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am I understanding scaled CADD scores correct?
cadd
3.5 years ago by curious ▴ 900
2
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1
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900
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Using snpsift to filter VCF by sample
snpsift
updated 3.5 years ago by 166k • written 3.5 years ago by ▴ 900
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0
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689
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Does larger standardized PRS value always means higher risk?
prs
3.6 years ago by curious ▴ 900
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0
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2.2k
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Comment: Comment: grep a vcf
3.7 years ago by curious ▴ 900
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0
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936
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Converting observed heritability to liability scale, how to get standard error?
hertiability greml ldsc
3.7 years ago by curious ▴ 900
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0
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1.8k
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Comment: Comment: keep samples that carry non-reference allele in list of variants snpeff/snpsift
3.8 years ago by curious ▴ 900
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1
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1.8k
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Comment: Comment: keep samples that carry non-reference allele in list of variants snpeff/snpsift
3.8 years ago by curious ▴ 900
3
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4
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1.8k
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keep samples that carry non-reference allele in list of variants snpeff/snpsift
snpeff snpsift bcftools
3.8 years ago by curious ▴ 900
0
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1
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1.2k
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subset vcf to keep only samples heterozygous or homozygous for the alternate allele of a given variant
bcftools
updated 3.8 years ago by ★ 1.2k • written 3.8 years ago by ▴ 900
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1
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2.1k
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Answer: Answer: Haploview.jar
3.9 years ago by curious ▴ 900
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4.9k
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Comment: Comment: Applying Machine Learning on vcf file
3.9 years ago by curious ▴ 900
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0
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2.2k
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Answer: Answer: New datasets for ancestry estimation and imputation?
4.0 years ago by curious ▴ 900
1
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1
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1.2k
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inner merge vcfs in one step?
bcftools
updated 4.0 years ago by 166k • written 4.0 years ago by ▴ 900
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1
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4.9k
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Comment: Comment: Applying Machine Learning on vcf file
4.0 years ago by curious ▴ 900
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0
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746
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Is it possible to report the allele frequency of integer copy numbers >= 3?
cn.mops cnv
4.1 years ago by curious ▴ 900
2
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1
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876
views
how to get exon regions for this gene w/ build 19 coordinates
bed
updated 4.2 years ago by 154k • written 4.2 years ago by ▴ 900
1
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0
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3.3k
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Answer: Answer: Snakemake bwa mem
4.2 years ago by curious ▴ 900
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0
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1.5k
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Answer: Answer: What is the best software for "phasing" in human population genomics with trio f
4.2 years ago by curious ▴ 900
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2
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2.0k
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Comment: Comment: is local ancestry inference typically always run w/ array genotypes instead of
4.2 years ago by curious ▴ 900
1
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4
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2.0k
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is local ancestry inference typically always run w/ array genotypes instead of imputed genotypes?
ancestry
updated 4.2 years ago by 4.8k • written 4.2 years ago by ▴ 900
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0
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1.3k
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Comment: Comment: RFMix v2 - ancestry per individual marker
4.2 years ago by curious ▴ 900
2
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7
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3.8k
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How do I log into this ftp server and look around?
ftp
updated 4.2 years ago by ★ 30k • written 4.2 years ago by ▴ 900
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0
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3.8k
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Comment: Comment: How do I log into this ftp server and look around?
4.2 years ago by curious ▴ 900
0
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2
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3.8k
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Comment: Comment: How do I log into this ftp server and look around?
4.2 years ago by curious ▴ 900
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0
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4.6k
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Comment: Comment: Highly used R packages with no Python equivalent
4.2 years ago by curious ▴ 900
0
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0
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715
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is it possible to subset samples and reheader a vcf in a single step?
bcftools
4.3 years ago by curious ▴ 900
0
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0
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1.2k
views
can you use LD scores from build 37 reference to get LD score intercept on build 38 summary stats?
ld regression score
4.3 years ago by curious ▴ 900
0
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2
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8.2k
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Comment: Comment: sorting a multi-sample (genotype) vcf file
4.4 years ago by curious ▴ 900
4
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2
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2.4k
views
You can't just liftover from one build to another using only coordinates correct?
liftover
updated 4.4 years ago by ▴ 10 • written 4.8 years ago by ▴ 900
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0
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2.8k
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Comment: Comment: what pihat cutoffs from plink --genome are 3rd degree relative
4.4 years ago by curious ▴ 900
1
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1
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2.8k
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what pihat cutoffs from plink --genome are 3rd degree relative
related ibd plink
4.4 years ago by curious ▴ 900
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1
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1.7k
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Comment: Comment: Make map file with recombination rate using plink?
4.4 years ago by curious ▴ 900
0
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3
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1.7k
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Make map file with recombination rate using plink?
germline plink
updated 4.4 years ago by 2.9k • written 4.4 years ago by ▴ 900
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0
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1.4k
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Comment: Comment: how to identify haplotypes and its frequency based SNP genotyping data?
4.5 years ago by curious ▴ 900
0
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0
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948
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Comment: Comment: Does this output indicate my bam is paired end?
4.5 years ago by curious ▴ 900
1
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2
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948
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Does this output indicate my bam is paired end?
samtools
4.5 years ago by curious ▴ 900
2
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0
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3.3k
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Answer: Answer: How to connect HLA alleles with rsID?
4.5 years ago by curious ▴ 900
0
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1
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1.6k
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Comment: Comment: Could someone help me check what genomic position is this variant nomenclature r
4.5 years ago by curious ▴ 900
1
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5
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1.6k
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Could someone help me check what genomic position is this variant nomenclature referring to ?
nomeclature
updated 4.5 years ago by 21k • written 4.5 years ago by ▴ 900
0
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0
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4.5k
views
Answer: Answer: how to run linux code in python
4.5 years ago by curious ▴ 900
316 results • Page 2 of 7
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