question about smarpca .perl -b parameter
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Description
When I used the smartPca.perl-b parameter, I encountered a question. When the order of the ind file was changed(sort the first or third column, respectively), the PCA results I got were quite different. What caused this? What are the specific requirements for the order of the -b parameter ind files?
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Research direction
Start by reading the smartPca.perl handling of the -b parameter and reproduce the PCA results with the ind file reordered by its first and third columns. Determine the ordering requirements and document the cause of the differing results, including a reproducible example.
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Assessment
- Tech stack
- perl
- Domain
- bioinformatics
- Issue type
- Documentation
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100