How MEGAN normalizes the data

User Questions
1

Hello,
I have been using MEGAN for quite a while now for my 16s metagenomic data. Recently I have been using the compare option to generate the comparison analysis but I dont understand how the MEGAN normalizes the data. Kindly help me with this problem, I will be very much thankful to you.

Best Regards,

Faizan Saleem

2

The number of reads of each sample is normalized to be the same as the smallest sample in the comparison

3

Hello Daniel,

Thank you for your kind reply. so does megan pick the reads randomly for normalization or is there a specific method ?

Best Regards,

Faizan Saleem

4

There is no resampling of reads, the number of reads assigned to a specific node is subjected to the following calculation:
divide by current sample size, then multiple by smallest sample size