PLINK genotype inputs: A complete list
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- Опубліковано 7 лип 2024
- The complete list of possibilities for #PLINK #genotype input files and specifics on their required format is shown.
More details on the PLINK website:
* binary #ped : www.cog-genomics.org/plink/1....
* classic ped: www.cog-genomics.org/plink/1....
* transposed ped: www.cog-genomics.org/plink/1....
* long files: www.cog-genomics.org/plink/1....
* #vcf and #bcf : www.cog-genomics.org/plink/1....
* oxford data format: www.cog-genomics.org/plink/1....
* #23andme format: www.cog-genomics.org/plink/1....
I am very proud to you and your lecture in the recent era of Science of Genomics . I am a student of your previous classmate Solomon Shiferaw (Phd).
Thank you, Prof., for sharing the information so precisely.
Whether from plink we can detect ROH estimation from pooled whole genome data?
Thank you very much! I would love a video on how to transform .fasta data on to SNP data so I can apply all that I am learning in your amazing channel. Thanks again!
Thank you for the wonderful explanation on these file formats! I was so confused when I started to use plink. Now I'm clear with inputs! I'm wondering, are the .ped and .map files ready for download from public databases if I want to calculate LD? Or should I make these files from raw sequencing data by writing my own scripts?
There is plenty of genotypes for cattle and sheep here, in ped and map
widde.toulouse.inra.fr/widde/
Also, check out some of my videos that deal with open access genotype data They contain references to many-many more datasets there, from a wide range of species
@@GenomicsBootCamp Great! Thank you！ ^_^