homework_6_ancestry
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| Both sides previous revision Previous revision Next revision | Previous revision Next revision Both sides next revision | ||
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homework_6_ancestry [2015/11/15 11:31] scott |
homework_6_ancestry [2015/11/15 17:41] scott |
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| ### ONLY EXPLAIN COMMANDS WHERE I SPECIFICALLY REQUEST IT! YOU DO NOT | ### ONLY EXPLAIN COMMANDS WHERE I SPECIFICALLY REQUEST IT! YOU DO NOT | ||
| - | ### HAVE TO EXPLAIN EVERY COMMAND! | + | ### HAVE TO EXPLAIN EVERY COMMAND! |
| + | ### in the end a PCA plot containing yourself compared to all 1000 Genomes | ||
| + | ### samples. | ||
| # For many questions you'll want to run analyses by chromosome. To do | # For many questions you'll want to run analyses by chromosome. To do | ||
| Line 107: | Line 109: | ||
| ### Retain in the 1000 Genomes VCF only your SNPs that are also fairly common | ### Retain in the 1000 Genomes VCF only your SNPs that are also fairly common | ||
| - | ### | + | ### because we're going to conduct PCA on these SNPs and only want common ones. |
| - | ###------ QUESTION 3: WHY WOULD WE REMOVE | + | ### |
| + | ###------ QUESTION 3: WHY WOULD WE RETAIN ONLY COMMON SNPS, OTHER THAN IT | ||
| ### | ### | ||
| for i in {1..22}; do | for i in {1..22}; do | ||
homework_6_ancestry.txt · Last modified: 2015/11/16 10:18 by scott
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