Dear all,

I changed the minimum alignment count to: 100, 400, and 1000

minimum alignment          differential expressed genes
100                                   4, 000

400                                   2,000

1000 (default)                   1,000

I was wondering, which minimum alignment we should go with? It would appear
the higher the alignment, the amount of differential expressed genes are

I was also wondering if the minimum alignment refers to the # of reads per
sequence? Is this true?

Also how are the FPKM and the minimum alignment are related?

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