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Use the excel to open the files Merged.txt, haplocheck_results (contains the contamination status), andhaplogroups_workshopsamples.txt (contains the haplogroup information for each one of the samples).
Filtering out the samples that are contaminated
- By using the haplocheck_results file, you will check which samples are contaminated (column B: Contamination Status). If there is any sample indicating YES in the contamination status column you will need to copy the Sample IDs (column A: Sample) and paste in a new excel file. Name your file as samples_to_remove and save it as txt format (see the image below as an example).
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