Entering edit mode
6.3 years ago
xioli2013
▴
10
Hi,
I am trying to make a taxonomy file like the one provided in qiime for all trnL gene.
What I have done: 1. all trnL sequences 2. all trnL gene accession number 3. all trnL gene tax id
I was able to get the lineage tag from the xml efetch function generated in Python:
'1435590': 'cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina;
Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae;
eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Urticaceae; Urtica',
But I am lost as to how to format it into taxonomy file which has a format: uid k__; p__; etc
I hope I can get some thoughts from the community.
Thank you,
xp
