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Answer: Answer: PCA results from PLINK and Hail vastly different
7 weeks ago by chrchang523 10k
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465
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Answer: Answer: allele matching between identical genotypes
10 weeks ago by chrchang523 10k
2
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1
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349
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Answer: Answer: number of homozygotes with phenotype
3 months ago by chrchang523 10k
2
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1
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517
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Answer: Answer: HWE test different result according Pheno data
3 months ago by chrchang523 10k
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431
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Answer: Answer: Clumping with r2=0 and 250kb radius in plink
5 months ago by chrchang523 10k
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460
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Answer: Answer: Plink Error
5 months ago by chrchang523 10k
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819
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Answer: Answer: Allele frequncies in plink including physical position in the output
6 months ago by chrchang523 10k
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1.1k
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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
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556
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Answer: Answer: Filter VCF File by VCF Format Variants
7 months ago by chrchang523 10k
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643
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Answer: Answer: reading pgen file into R
7 months ago by chrchang523 10k
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1.3k
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Answer: Answer: PLINK linear association testing command with an interaction and 2 covariates te
8 months ago by chrchang523 10k
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582
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Answer: Answer: Using -r2 in plink1.9 with .bim file that has CHR:POS entries
8 months ago by chrchang523 10k
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438
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Answer: Answer: VCFTools MAF Filter needs Efficiency Inquiry
8 months ago by chrchang523 10k
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476
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Answer: Answer: Assistance Needed with Converting VCF File for BOLT-LMM Usage
8 months ago by chrchang523 10k
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846
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Answer: Answer: PLINK1.9 check sex problem
9 months ago by chrchang523 10k
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0
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581
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Answer: Answer: PLINK, Unphased heterozygous hardcalls in partially-phased variants are poorly r
10 months ago by chrchang523 10k
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630
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Answer: Answer: Base-10 log transformed P-values and clump with plink v.1.9
10 months ago by chrchang523 10k
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445
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Answer: Answer: How do I restrict to only hm3 SNPs for plink analyses?
10 months ago by chrchang523 10k
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1.2k
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Answer: Answer: Linkage Disequilibrium with Plink
11 months ago by chrchang523 10k
2
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2.0k
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Answer: Answer: KING kinship inference error
11 months ago by chrchang523 10k
1
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0
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712
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Answer: Answer: Where do I get a large reference VCF?
11 months ago by chrchang523 10k
1
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1
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855
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Answer: Answer: PLINK Error: Invalid QUAL value on line
12 months ago by chrchang523 10k
2
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0
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727
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Answer: Answer: Calculate the kinship matrix from NGS data
12 months ago by chrchang523 10k
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0
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436
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Answer: Answer: invalid --hwe parameter sequence error when doing QC
14 months ago by chrchang523 10k
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0
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1.1k
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Answer: Answer: make BED file from existing BIM and FAM files
14 months ago by chrchang523 10k
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1
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2.3k
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Answer: Answer: VCF to Plink files
14 months ago by chrchang523 10k
2
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1
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762
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Answer: Answer: drop duplicate insertion deletions in VCF at same position while keeping one
14 months ago by chrchang523 10k
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3.7k
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Answer: Answer: PLINK --geno and --mind
updated 15 months ago by 43k • written 15 months ago by 10k
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1.2k
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Answer: Answer: How to correct the long variants ID error?
15 months ago by chrchang523 10k
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1.3k
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Answer: Answer: How to measure pairwise genetic distance in all samples of a VCF file
17 months ago by chrchang523 10k
4
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2
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1.2k
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Answer: Answer: long view SNPs in vcf file
17 months ago by chrchang523 10k
1
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0
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588
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Answer: Answer: Calculate missing genotypes per sample with plink2
17 months ago by chrchang523 10k
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0
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1.7k
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Answer: Answer: PLINK1.9 Segmentation fault (core dumped)
17 months ago by chrchang523 10k
2
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2
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1.2k
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Answer: Answer: PLINK p value returning NA
18 months ago by chrchang523 10k
2
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0
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781
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Answer: Answer: Better splitting of mutliallelic sites then bcftools norm --m-any
19 months ago by chrchang523 10k
0
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1
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833
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Answer: Answer: plink2 fails to calculate allele frequency
19 months ago by chrchang523 10k
1
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1
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937
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Answer: Answer: Using a phenotype file with several phenotype columns- PLINK2
20 months ago by chrchang523 10k
3
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1
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1.4k
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Answer: Answer: SNP array plink to VCF validation issue
20 months ago by chrchang523 10k
1
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2
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2.1k
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Answer: Answer: Plink : Variant names are limited to 16000 characters
20 months ago by chrchang523 10k
1
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1
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2.0k
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Answer: Answer: High proportion of non-biallelic SNPs in dbSNP 155 vs 144
20 months ago by chrchang523 10k
1
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1
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2.7k
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Answer: Answer: set-all-var-ids misuse in plink 2.0
20 months ago by chrchang523 10k
2
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2
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1.1k
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Answer: Answer: Changing from "rs" to "chr_pos_ref_alt"
20 months ago by chrchang523 10k
2
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1
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621
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Answer: Answer: PRS with multiple panels of SNP weights
20 months ago by chrchang523 10k
1
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1
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1.3k
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Answer: Answer: updating .bim with new rsids
21 months ago by chrchang523 10k
1
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1
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634
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Answer: Answer: plink update .bim question
21 months ago by chrchang523 10k
1
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1
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772
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Answer: Answer: How can I keep INFO value when convert bgen to VCF by using plink2?
21 months ago by chrchang523 10k
2
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1
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875
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Answer: Answer: Plink runtime when using "--extract"
22 months ago by chrchang523 10k
1
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1
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772
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Answer: Answer: Coded allele for plink --r command
22 months ago by chrchang523 10k
2
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0
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909
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Answer: Answer: Help with allele flip in plink
22 months ago by chrchang523 10k
2
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0
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585
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Answer: Answer: Package for PCA on post-imputation dosage genotype data for GWAS (minimac/Michig
23 months ago by chrchang523 10k
438 results • Page 1 of 9
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