Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.
Hi,
The ete3 evol documentation is well presented and easy to read. However, I think there are several typos in the explanation of the b_free - b_neut test (ex. here and here):
Alternative
Null
Test
b_free
b_neut
foreground branch not neutral (w != 1) - RX if P<0.05 (means that w on frg=1) - PS if P>0.05 and wfrg>1 - CN if P>0.05 and wfrg>1 (Ziheng Yang (2002))
I think this should read:
Alternative
Null
Test
b_free
b_neut
foreground branch not neutral (w != 1) - RX if P>0.05 (means that w on frg=1) - PS if P<0.05 and wfrg>1 - CN if P<0.05 and wfrg<1 (Ziheng Yang (2002))
Also CN (CoNserved?) is not defined. Maybe NS (Negative Selection) would be more intuitive.
Hi, The ete3 evol documentation is well presented and easy to read. However, I think there are several typos in the explanation of the b_free - b_neut test (ex. here and here):
- RX if P<0.05 (means that w on frg=1)
- PS if P>0.05 and wfrg>1
- CN if P>0.05 and wfrg>1
(Ziheng Yang (2002))
- RX if P>0.05 (means that w on frg=1)
- PS if P<0.05 and wfrg>1
- CN if P<0.05 and wfrg<1
(Ziheng Yang (2002))
Also CN (CoNserved?) is not defined. Maybe NS (Negative Selection) would be more intuitive.