guoyi.run | ||
LICENSE | ||
README.md | ||
tnt2winclada.cpp |
TNT Script used by Guoyi
The TNT script follows MIT and part of script is from setk.run belonging to Salvador Arias (Instituto Miguel Lillo, San Miguel de Tucumán, Argentina).
Usage
-
Place this script and your matrix tnt file
filename
under the folder that you calltnt
orexe
file is placed -
Enter
tnt
-
Enter command
guoyi filename;
Functions
-
Estimate implied weighting K value.
-
Search trees via TBR Mult and Xmult.
-
Perform Strict consensus.
-
Calculate Relative Bremer support, jackknifing, and bootstrap.
-
Map apomorphic characters on the consensus tree.
-
Calculate TL, CI, and RI.
Options
-
Results instructions are at the end of
tnt.log
. -
trees.tre
,resample.tre
are trees with taxname. -
trees_no.tre
,resample_no.tre
are trees without taxname. -
nelsen
can be replaced bymajority
. -
xmult
andmult
replications and hold trees number can be adjusted. -
winclada.tre
can be transferred to the acceptable format for WinClada by tnt2winclada and the output file can be put into Winclada with your tnt matrix filefilename
for mapping apomorphic characters and homoplasy.
TNT2WinClada
~|~|\ |~|~ ~) | |o._ |~| _ _| _
| | \| | /_ \/\/ || ||_|(_|(_|(_|
MIT, Guoyi Zhang, 2023
Function
Convert TNT output tree file without tags and taxname, e.g. winclada.tre
produced by TNT script, to WinClada acceptable format tree.
Compile
Linux & Unix
g++ tnt2winclada.cpp -o tnt2winclada
or
clang++ -o tnt2winclada tnt2winclada.cpp
Windows
cl /EHsc tnt2winclada.cpp
Usage
tnt2winclada -i ${input_file} -o ${output_file}