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0
votes
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replies
445
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Comment:
Comment: PLINK multivariable GLM output: p-value without BETA and SE
9 days ago by
chrchang523
10k
0
votes
0
replies
1.2k
views
Comment:
Comment: PLINK p value returning NA
9 days ago by
chrchang523
10k
1
vote
0
replies
402
views
Answer:
Answer: PCA results from PLINK and Hail vastly different
7 weeks ago by
chrchang523
10k
0
votes
1
reply
703
views
Comment:
Comment: Different relatedness estimates by PLINK and VCFTOOLS despite same method
9 weeks ago by
chrchang523
10k
0
votes
1
reply
502
views
Comment:
Comment: merging VCF files using bcftools - everyone becomes related
9 weeks ago by
chrchang523
10k
1
vote
3
replies
703
views
Comment:
Comment: Different relatedness estimates by PLINK and VCFTOOLS despite same method
9 weeks ago by
chrchang523
10k
0
votes
0
replies
457
views
Comment:
Comment: Extract bfile from .bgen using a given .bim to handle duplicated snps
9 weeks ago by
chrchang523
10k
0
votes
1
reply
467
views
Answer:
Answer: allele matching between identical genotypes
11 weeks ago by
chrchang523
10k
2
votes
1
reply
353
views
Answer:
Answer: number of homozygotes with phenotype
3 months ago by
chrchang523
10k
2
votes
1
reply
519
views
Answer:
Answer: HWE test different result according Pheno data
3 months ago by
chrchang523
10k
1
vote
1
reply
433
views
Answer:
Answer: Clumping with r2=0 and 250kb radius in plink
5 months ago by
chrchang523
10k
0
votes
0
replies
592
views
Comment:
Comment: PLINK Error: No valid entries in --score file
5 months ago by
chrchang523
10k
0
votes
0
replies
462
views
Answer:
Answer: Plink Error
5 months ago by
chrchang523
10k
0
votes
0
replies
824
views
Comment:
Comment: Allele frequncies in plink including physical position in the output
6 months ago by
chrchang523
10k
0
votes
1
reply
824
views
Answer:
Answer: Allele frequncies in plink including physical position in the output
6 months ago by
chrchang523
10k
0
votes
1
reply
824
views
Comment:
Comment: Allele frequncies in plink including physical position in the output
6 months ago by
chrchang523
10k
1
vote
0
replies
457
views
Comment:
Comment: Successful NCBI NIAID Codeathon on VCF Files in SARS-CoV-2 Genomics
6 months ago by
chrchang523
10k
0
votes
0
replies
1.1k
views
Answer:
Answer: Is there a way to get a list of all homogygous sites for each sample with plink
6 months ago by
chrchang523
10k
0
votes
0
replies
509
views
Comment:
Comment: Restricting vcf entries based on ID length
6 months ago by
chrchang523
10k
2
votes
0
replies
557
views
Answer:
Answer: Filter VCF File by VCF Format Variants
7 months ago by
chrchang523
10k
3
votes
0
replies
651
views
Answer:
Answer: reading pgen file into R
7 months ago by
chrchang523
10k
1
vote
0
replies
700
views
Comment:
Comment: simulation
8 months ago by
chrchang523
10k
0
votes
1
reply
1.3k
views
Comment:
Comment: PLINK linear association testing command with an interaction and 2 covariates te
8 months ago by
chrchang523
10k
0
votes
1
reply
1.3k
views
Comment:
Comment: PLINK linear association testing command with an interaction and 2 covariates te
8 months ago by
chrchang523
10k
0
votes
1
reply
1.3k
views
Answer:
Answer: PLINK linear association testing command with an interaction and 2 covariates te
8 months ago by
chrchang523
10k
0
votes
0
replies
487
views
Comment:
Comment: plink: king table, why kinship=0.5 and IBS0=0
8 months ago by
chrchang523
10k
0
votes
0
replies
586
views
Answer:
Answer: Using -r2 in plink1.9 with .bim file that has CHR:POS entries
8 months ago by
chrchang523
10k
0
votes
0
replies
439
views
Answer:
Answer: VCFTools MAF Filter needs Efficiency Inquiry
8 months ago by
chrchang523
10k
0
votes
0
replies
478
views
Answer:
Answer: Assistance Needed with Converting VCF File for BOLT-LMM Usage
8 months ago by
chrchang523
10k
0
votes
0
replies
851
views
Answer:
Answer: PLINK1.9 check sex problem
9 months ago by
chrchang523
10k
0
votes
0
replies
581
views
Answer:
Answer: PLINK, Unphased heterozygous hardcalls in partially-phased variants are poorly r
10 months ago by
chrchang523
10k
1
vote
0
replies
633
views
Answer:
Answer: Base-10 log transformed P-values and clump with plink v.1.9
10 months ago by
chrchang523
10k
2
votes
0
replies
880
views
Comment:
Comment: How to calculate kinship matrix table from vcf file
10 months ago by
chrchang523
10k
1
vote
0
replies
446
views
Answer:
Answer: How do I restrict to only hm3 SNPs for plink analyses?
10 months ago by
chrchang523
10k
0
votes
0
replies
794
views
Comment:
Comment: PLINK not converting entire vcf to bed file
10 months ago by
chrchang523
10k
0
votes
0
replies
1.2k
views
Comment:
Comment: Linkage Disequilibrium with Plink
11 months ago by
chrchang523
10k
0
votes
1
reply
1.2k
views
Answer:
Answer: Linkage Disequilibrium with Plink
11 months ago by
chrchang523
10k
2
votes
0
replies
2.0k
views
Answer:
Answer: KING kinship inference error
11 months ago by
chrchang523
10k
1
vote
0
replies
714
views
Answer:
Answer: Where do I get a large reference VCF?
11 months ago by
chrchang523
10k
1
vote
1
reply
857
views
Comment:
Comment: PLINK Error: Invalid QUAL value on line
12 months ago by
chrchang523
10k
1
vote
1
reply
857
views
Answer:
Answer: PLINK Error: Invalid QUAL value on line
12 months ago by
chrchang523
10k
2
votes
0
replies
732
views
Answer:
Answer: Calculate the kinship matrix from NGS data
12 months ago by
chrchang523
10k
0
votes
0
replies
436
views
Answer:
Answer: invalid --hwe parameter sequence error when doing QC
14 months ago by
chrchang523
10k
0
votes
0
replies
1.1k
views
Answer:
Answer: make BED file from existing BIM and FAM files
14 months ago by
chrchang523
10k
0
votes
1
reply
1.8k
views
Comment:
Comment: PLINK2 selecting variants based on INFO score
14 months ago by
chrchang523
10k
0
votes
1
reply
1.8k
views
Comment:
Comment: PLINK2 selecting variants based on INFO score
14 months ago by
chrchang523
10k
0
votes
1
reply
1.8k
views
Comment:
Comment: PLINK2 selecting variants based on INFO score
14 months ago by
chrchang523
10k
1
vote
1
reply
2.3k
views
Answer:
Answer: VCF to Plink files
14 months ago by
chrchang523
10k
2
votes
1
reply
764
views
Answer:
Answer: drop duplicate insertion deletions in VCF at same position while keeping one
14 months ago by
chrchang523
10k
0
votes
0
replies
1.6k
views
Comment:
Comment: High ref mismatch rate after liftOver from 23andme hg19 to hg38
15 months ago by
chrchang523
10k
892 results • Page
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