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Comment: Comment: fast way to get last position in a large indexed VCF?
3.0 years ago by curious ▴ 890
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0
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1.3k
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Comment: Comment: is it possible to calculate MAF from DS instead of GT when using bcftools +fill-
3.0 years ago by curious ▴ 890
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0
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1.3k
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Comment: Comment: is it possible to calculate MAF from DS instead of GT when using bcftools +fill-
3.0 years ago by curious ▴ 890
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3
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1.3k
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is it possible to calculate MAF from DS instead of GT when using bcftools +fill-tags?
bcftools
3.0 years ago by curious ▴ 890
1
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0
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747
views
Does genomic control have a valid interpretation when there are no genome-wide significant hits
genomic control statistics
3.2 years ago by curious ▴ 890
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0
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699
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am I understanding scaled CADD scores correct?
cadd
3.3 years ago by curious ▴ 890
2
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1
reply
852
views
Using snpsift to filter VCF by sample
snpsift
updated 3.4 years ago by 166k • written 3.4 years ago by ▴ 890
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0
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655
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Does larger standardized PRS value always means higher risk?
prs
3.5 years ago by curious ▴ 890
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0
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2.1k
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Comment: Comment: grep a vcf
3.5 years ago by curious ▴ 890
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0
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878
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Converting observed heritability to liability scale, how to get standard error?
hertiability greml ldsc
3.6 years ago by curious ▴ 890
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0
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1.7k
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Comment: Comment: keep samples that carry non-reference allele in list of variants snpeff/snpsift
3.6 years ago by curious ▴ 890
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1
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1.7k
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Comment: Comment: keep samples that carry non-reference allele in list of variants snpeff/snpsift
3.6 years ago by curious ▴ 890
3
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4
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1.7k
views
keep samples that carry non-reference allele in list of variants snpeff/snpsift
snpeff snpsift bcftools
3.6 years ago by curious ▴ 890
0
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1
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1.1k
views
subset vcf to keep only samples heterozygous or homozygous for the alternate allele of a given variant
bcftools
updated 3.6 years ago by ★ 1.1k • written 3.6 years ago by ▴ 890
1
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1
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2.0k
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Answer: Answer: Haploview.jar
3.8 years ago by curious ▴ 890
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0
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4.7k
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Comment: Comment: Applying Machine Learning on vcf file
3.8 years ago by curious ▴ 890
1
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0
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2.1k
views
Answer: Answer: New datasets for ancestry estimation and imputation?
3.9 years ago by curious ▴ 890
1
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1
reply
1.1k
views
inner merge vcfs in one step?
bcftools
updated 3.9 years ago by 166k • written 3.9 years ago by ▴ 890
0
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1
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4.7k
views
Comment: Comment: Applying Machine Learning on vcf file
3.9 years ago by curious ▴ 890
0
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0
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700
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Is it possible to report the allele frequency of integer copy numbers >= 3?
cn.mops cnv
4.0 years ago by curious ▴ 890
2
votes
1
reply
824
views
how to get exon regions for this gene w/ build 19 coordinates
bed
updated 4.0 years ago by 153k • written 4.0 years ago by ▴ 890
1
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0
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3.0k
views
Answer: Answer: Snakemake bwa mem
4.0 years ago by curious ▴ 890
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0
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1.4k
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Answer: Answer: What is the best software for "phasing" in human population genomics with trio f
4.1 years ago by curious ▴ 890
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2
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1.9k
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Comment: Comment: is local ancestry inference typically always run w/ array genotypes instead of
4.1 years ago by curious ▴ 890
1
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4
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1.9k
views
is local ancestry inference typically always run w/ array genotypes instead of imputed genotypes?
ancestry
updated 4.1 years ago by 4.8k • written 4.1 years ago by ▴ 890
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0
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1.3k
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Comment: Comment: RFMix v2 - ancestry per individual marker
4.1 years ago by curious ▴ 890
2
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7
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3.6k
views
How do I log into this ftp server and look around?
ftp
updated 4.1 years ago by ★ 30k • written 4.1 years ago by ▴ 890
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0
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3.6k
views
Comment: Comment: How do I log into this ftp server and look around?
4.1 years ago by curious ▴ 890
0
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2
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3.6k
views
Comment: Comment: How do I log into this ftp server and look around?
4.1 years ago by curious ▴ 890
0
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0
replies
4.3k
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Comment: Comment: Highly used R packages with no Python equivalent
4.1 years ago by curious ▴ 890
0
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0
replies
672
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is it possible to subset samples and reheader a vcf in a single step?
bcftools
4.1 years ago by curious ▴ 890
0
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0
replies
1.1k
views
can you use LD scores from build 37 reference to get LD score intercept on build 38 summary stats?
ld regression score
4.2 years ago by curious ▴ 890
0
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2
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8.0k
views
Comment: Comment: sorting a multi-sample (genotype) vcf file
4.2 years ago by curious ▴ 890
4
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2
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2.2k
views
You can't just liftover from one build to another using only coordinates correct?
liftover
updated 4.3 years ago by ▴ 10 • written 4.7 years ago by ▴ 890
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0
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2.7k
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Comment: Comment: what pihat cutoffs from plink --genome are 3rd degree relative
4.3 years ago by curious ▴ 890
1
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1
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2.7k
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what pihat cutoffs from plink --genome are 3rd degree relative
related ibd plink
4.3 years ago by curious ▴ 890
0
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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?
4.3 years ago by curious ▴ 890
0
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3
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1.7k
views
Make map file with recombination rate using plink?
germline plink
updated 4.3 years ago by 2.9k • written 4.3 years ago by ▴ 890
0
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0
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1.3k
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Comment: Comment: how to identify haplotypes and its frequency based SNP genotyping data?
4.3 years ago by curious ▴ 890
0
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0
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889
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Comment: Comment: Does this output indicate my bam is paired end?
4.4 years ago by curious ▴ 890
1
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2
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889
views
Does this output indicate my bam is paired end?
samtools
4.4 years ago by curious ▴ 890
2
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0
replies
3.2k
views
Answer: Answer: How to connect HLA alleles with rsID?
4.4 years ago by curious ▴ 890
0
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1
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1.5k
views
Comment: Comment: Could someone help me check what genomic position is this variant nomenclature r
4.4 years ago by curious ▴ 890
1
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5
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1.5k
views
Could someone help me check what genomic position is this variant nomenclature referring to ?
nomeclature
updated 4.4 years ago by 21k • written 4.4 years ago by ▴ 890
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0
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4.4k
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Answer: Answer: how to run linux code in python
4.4 years ago by curious ▴ 890
0
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0
replies
1.6k
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Comment: Comment: quick way to get samples that are NOT homozygous reference for a given record us
4.4 years ago by curious ▴ 890
0
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1
reply
1.6k
views
Comment: Comment: quick way to get samples that are NOT homozygous reference for a given record us
4.4 years ago by curious ▴ 890
0
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4
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1.6k
views
quick way to get samples that are NOT homozygous reference for a given record using bcftools?
bcftools
4.4 years ago by curious ▴ 890
0
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0
replies
925
views
Does a smaller value of F from PLINK --het represent higher heterozygosity?
plink
4.4 years ago by curious ▴ 890
0
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0
replies
628
views
is the absolute value of `plink2.eigenvec.var` from `plink2 --pca biallelic-var-wts approx` a measure of how much each SNP drives PCS?
plink
4.5 years ago by curious ▴ 890
311 results • Page 2 of 7
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