plink to vcf
PLINK 1.9 can do this: plink --vcf myvcf.vcf --maf 0.05 --recode --out myplink. (Are you sure you want to convert to ped/map, though? PLINK ...,My sense, though, is that pedigree info is somehow encoded in the .bed file, though, as other tools for converting VCF to PLINK, like the aforementioned ...
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 plink to vcf 相關參考資料
Convert plink files to VCF: Reference allele file - Biostars
How To Convert Vcf File To Plink Ped Format? ... steps and the use of pseq is to just download the PLINK 1.9 beta and use the recode function https://www.biostars.org Convert VCFf file to plink pedmap format while filtering the SNPs ...
PLINK 1.9 can do this: plink --vcf myvcf.vcf --maf 0.05 --recode --out myplink. (Are you sure you want to convert to ped/map, though? PLINK ... https://www.biostars.org Converting VCF to PLINK .bed binary fileset to check for pedigree ...
My sense, though, is that pedigree info is somehow encoded in the .bed file, though, as other tools for converting VCF to PLINK, like the aforementioned ... https://www.biostars.org Create VCF file from .bim, .fam and .bed file - Biostars
This is also supported directly by PLINK 1.9. plink --bfile [filename prefix] --recode vcf --out [VCF prefix]. (You may want to replace "vcf" with ... https://www.biostars.org Create VCF from .bim, .bed and .fam files - Stack Overflow
You can perform this operation with plink2 (https://www.cog-genomics.org/plink2/) with the following command: plink --bfile prefix} --recode vcf bgz --out [prefix]. https://stackoverflow.com Data management - PLINK 1.9 - cog-genomics.org
(PLINK forces you to combine '01' with --,output-}missing-genotype when this is necessary to prevent ... plink --bfile binary_fileset --recode vcf-iid --out new_vcf. https://www.cog-genomics.org How to convert plink files to VCF (or other) easily parseable format?
I've got some plink files (.bed .bim .fam) that allegedly contain genetic variation data for many (human) individuals. I would like to analyse this data using my own ... https://www.researchgate.net PLINK 1.9 - cog-genomics.org
This is a comprehensive update to Shaun Purcell's PLINK command-line program, ... no practical value, since the file format it expects is too different from VCF. https://www.cog-genomics.org plink 1.9 PED to VCF, SNPs differ on input and output files - Biostars
Hi,. I am using plink v 1.9 to convert my ped file to vcf with command: ./plink --ped file.ped --map file.map --recode vcf --out ped_to_vcf. (ped file was obtained by ... https://www.biostars.org update fam file VCF -> plink bfile - Biostars
--update-parents (http://www.cog-genomics.org/plink/1.9/data#update_indiv ), --update-sex, and --pheno can be used for this purpose. https://www.biostars.org |