Hello,
I wonder to know how to convert Finalreport.txt to PLINK ped format? What tool I should use or is there any suggestions how this could be done? The files looks like;
[Header] GSGT Version 1.9.4 Processing Date 4/6/2017 7:49 AM Content BovineHD_B.bpm Num SNPs 777962 Total SNPs 777962 Num Samples 96 Total Samples 96 File 10 of 96 [Data] SNP Name Sample ID Allele1 - Top Allele2 - Top GC Score Sample Name Sample Group Sample Index SNP Index SNP Aux Allele1 - Forward Allele2 - Forward Allele1 - Design Allele2 - Design Allele1 - AB Allele2 - AB Allele1 - Plus Allele2 - Plus Chr Position GT Score Cluster Sep SNP ILMN Strand Customer Strand Top Genomic Sequence Plus/Minus Strand Theta R X Y X Raw Y Raw B Allele Freq Log R Ratio CNV Value CNV Confidence
Thanks in advance!
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You're asking how to convert a generic format to a specific format, without mentioning what the file contains or in what format it has the data.
Thank you Ram! the file is produced from sequencing company. Here, you can see what it contains. I want all 96 samples to convert in to one single ped file.
Please edit your question and add this information in there.