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More representative subsampling "more-random" algorithm #8

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averagehat opened this issue Mar 31, 2015 · 1 comment · Fixed by #9
Closed

More representative subsampling "more-random" algorithm #8

averagehat opened this issue Mar 31, 2015 · 1 comment · Fixed by #9

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@averagehat
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At @mmelendrez suggestion, We may get a more representative or random subsample result by altering the "maximum overlap" #2 solution ( at the expense of some depth minimization, but probably not a lot).

When an index under the minimum depth is reached, new reads need to be picked. Instead of picking the read with the maximum overlap, randomly pick among any reads which will overlap at that index.

Proposal: Add an optional flag "-r" or "--more-random" to use this "more-random" solution.

@mmelendrez
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agreed - we can compare outputs that way as well.

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