## page was renamed from IG_results_file_format
= Description of InterGenomics Results Files Format =
(Scroll down for all formats)

== Format for DGVs, Polygenic effect and gEBVs result files ==
||<tablewidth="800px">'''Column ''' ||'''Name of Variable ''' ||'''Example ''' ||
||1-3 ||File Identifies ||751, 752, 753 ||
||4-6 ||Breed ||BSW ||
||7-9 ||Country ||USA ||
||11-13 ||Trait ||mil ||
||15-33 ||Animal ID ||BSWUSAM000000109152 ||
||35-49 ||Value ||DGV / polygenic effect / gEBV ||
||52-57 ||Reliability (if applicable) ||0.6500 ||


Examples:

'''DGVs'''<<BR>>
||<tablewidth="800px">751 ||BSW ||CHE ||pro ||BSWUSAM000000109152 ||-64.7036923 ||0.0000 ||
||751 ||BSW ||CHE ||pro ||BSWDEUM000803611398 ||-46.9769316 ||0.0000 ||
||751 ||BSW ||CHE ||pro ||BSWUSAM000000118619 ||-23.1922227 ||0.0000 ||




'''Polygenic effects'''<<BR>>
||<tablewidth="800px">752 ||BSW ||CHE ||pro ||BSWGRP0000000000000 ||7.9706095 ||0.0000 ||
||752 ||BSW ||CHE ||pro ||BSWUSAF000000029496 ||7.3884218 ||0.0000 ||
||752 ||BSW ||CHE ||pro ||BSWUSAM000000021760 ||7.3884218 ||0.0000 ||




'''gEBV'''<<BR>>
||<tablewidth="800px">753 ||BSW ||CHE ||pro ||BSWUSAM000000109152 ||-68.9313108 ||0.6500 ||
||753 ||BSW ||CHE ||pro ||BSWDEUM000803611398 ||-52.4821532 ||0.6500 ||
||753 ||BSW ||CHE ||pro ||BSWUSAM000000118619 ||-27.5975303 ||0.6700 ||




<<BR>>

== Format for SNPs effects result files (tab delimited) ==
||<tablewidth="800px">'''Column ''' ||'''Name of Variable ''' ||'''Example ''' ||
||1 ||Chromosome number ||1 ||
||2 ||Position ||135098 ||
||3 ||idx on IG reference map ||1 ||
||4 ||Sample frequency ||0.3787 ||
||5 ||SNP effect ||-0.005343431 ||
||6 ||SNP Name ||Hapmap43437-BTA-101873 ||
||6 ||Base population frequency ||0.4004 ||


<<BR>>

== Format for publishable status of Contributor's Holstein young bulls in A.I. (semicolon delimited) ==
||<tablewidth="800px">'''Column ''' ||'''Name of Variable ''' ||'''Example ''' ||
||1 ||Young bulls in A.I. ID ||HOLDEUM000000109152 ||
||2 ||Contributor Name ||VIT ||
||3 ||Publishable Status (Y/N) ||N ||


<<BR>>

== Format for file pedigree_names.txt (semicolon delimited) ==
||<tablewidth="800px">'''Column ''' ||'''Name of Variable ''' ||'''Example ''' ||
||1 ||Animal international identification:<<BR>>- Breed of animal<<BR>>- Country of registration<<BR>>- Sex<<BR>>- ID number of animal ||BSW840F003000210772 ||
||2 ||Sire international identification ||BSWUSAM000068122123 ||
||3 ||Dam international identification ||BSWUSAF000068123589 ||
||4 ||Date of birth ||20130114 ||
||5 ||Name ||BMG DD PRETTY LIL LIAR ET ||
||6 ||Status^1^ ||U ||


1. Pedigree Verification Status: A = auto-created; U = unverified; V = verified; X = invalid. Animals with pedigree changes due to pedigree pruning or parentage conflicts identified by genotypes have Pedigree Verification Status = U.

<<BR>>

== Format for file auxdata_$RUNID.csv (auxiliary information from GenoEx-GDE, semicolon delimited) ==
||<tablewidth="800px">'''Column ''' ||'''Name of Variable ''' ||'''Example ''' ||
||1 ||Country uploading the genotype ||USA ||
||2 ||Animal international identification:<<BR>>- Breed of animal<<BR>>- Country of registration<<BR>>- Sex<<BR>>- ID number of animal ||BSWUSAM000470210343 ||
||3 ||SNPChip Array Code ||76999_a ||
||4 ||UUID ||792b990c-67f0-4879-9d57-fa15b19a71c2 ||