First of all thank you for providing such amazing tools !
In the current release from shortbred
in shortbred_identify.py line 111:
grpParam.add_argument(‘–consthresh’,default = .95, type=float, dest=‘dConsThresh’, help=‘Enter the consensus threshold for assigning AA's in the family alignments to the consensus sequences. The default is .70. Examples: .60, .70, .80,…’)
The default parameter differs from what is specified in help.
What would be the default value for this, I did not find anything on the matter. Does it influence the analysis by a lot ?
Cheers,
Max