MEGAN - species summary

[iltisanni]

Hi,

for those who know the free (community) MEGAN software.

We sequenced a metagenome and now want to know what species with how many reads were found overall. If possible in a table like this:

species reads
Pseudomonas fluorescens 24000
Escherichia coli 16000
... ...

Does anyone know how to get that information from MEGAN... this software is really complex and confusing imho

[pbm13]

I have been trying to get similar info out of Megan. I do not know the answer but there is a MEGAN forum called MEGAN community, you might want to try posting there

[iltisanni]

OK thank you.

I will try to find an answer there and if I get one I'll post it here aswell.

[iltisanni]

Still no answer in the community forum but I think I found a workaround:


uncollapse all, select all leaves, list summary, copy everything into an editor, delete blank lines and replace : by \t -> paste into Excel…