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Is your feature request related to a problem? Please describe.
Tracking ALT and REF alleles for each location is required to convert data into VCF format
Describe the solution you'd like ALT and REF alleles should be determine from genome alignments and then tracked for each Location object
Describe alternatives you've considered
The sheep genome consortium tracks genotypes with REF/ALT convention, data can be imported from here. However, all the SNPs not managed by them (ie Affymetrix) cannot have these attributes
Additional context
Please see comments in #18 for import_consortium.py
Add ALT and REF class attributes to src.features.smarterdb.Location
Track latest data from Sheep genome consortium
The text was updated successfully, but these errors were encountered:
Is your feature request related to a problem? Please describe.
Tracking
ALT
andREF
alleles for each location is required to convert data into VCF formatDescribe the solution you'd like
ALT
andREF
alleles should be determine from genome alignments and then tracked for eachLocation
objectDescribe alternatives you've considered
The sheep genome consortium tracks genotypes with
REF/ALT
convention, data can be imported from here. However, all the SNPs not managed by them (ie Affymetrix) cannot have these attributesAdditional context
Please see comments in #18 for
import_consortium.py
ALT
andREF
class attributes tosrc.features.smarterdb.Location
The text was updated successfully, but these errors were encountered: