Open WebBach opened 3 years ago
Hi, the bin2meta.tsv
as described in the tutorial is a:
mapping file that links each bin to the metagenome it has been reconstructed from. It is a tab-separated file where the input bins are in the first column and metagenomes in the second column
The bin2meta.tsv
file, as also reported in the tutorial:
For this example, we are providing the mapping file bin2meta.tsv present inside the example folder.
is available in the PhyloPhlAn repository here: https://github.com/biobakery/phylophlan/blob/master/phylophlan/examples/03_metagenomic/bin2meta.tsv
No tool was used to create that file, but it has been derived by simply considering which MAGs were metagenomically-assembled from what metagenome file.
I hope it is clearer now.
Thanks, Francesco
Hi, Thanks for such useful tool! I've been following your Example 03: Metagenomic application - Metagenomic analysis of the Ethiopian cohort, but I got stuck in the least section of drawing heatmaps.
Step 3. Heatmaps of the top 21 SGBs found in the Ethiopian metagenomes
where: is a mapping file that links each bin to the metagenome it has been reconstructed from. It is a tab-separated file where the input bins are in the first column and metagenomes in the second column
My issue is that I don't know how to obtain this --map file from my data. Which tool did you use?
Thanks :)