Zeqian Li

icon company BillionToOne icon location Senior Bioinformatics Scientist, BillionToOne. Formerly Seppe Kuehn lab at the University of Chicago

Results 2 issues of Zeqian Li

Database marker gene file "phyeco.map" has wrong genome_id label

I'm using the default databsae v1.2. In the file $PATH_TO_DB/maker_genes/phyeco.map, the label genome_id is mostly 1408422.3 (which seems to be Alkaliphilus_transvaalensis_60415) instead of the correct id corresponding to the value...

Test 11 and 14 fails (and fixes)

Python version: 3.8.5 MIDAS: 1.3.2 **Test 11**: `'Traceback (most recent call last):\n File "/home/zeqianli/Documents/Kuehn/Software/MIDAS/scripts/snp_diversity.py", line 370, in \n check_args(args)\n File "/home/zeqianli/Documents/Kuehn/Software/MIDAS/scripts/snp_diversity.py", line 180, in check_args\n if args[\'rand_reads\'] > args[\'site_depth\'] and...