Usage: catsequences filename
Where filename contains a list of files with sequences to be concatenated The concatenated alignments are outputted to a file called "allseqs.fas" Partition information will be written to the file "allseqs.partitions.txt"
The sequence names are read up to the first "." or "|" (or the end of the name)
Download the file "catsequences.c" and or if you have git installed use the command:
git clone https://github.com/ChrisCreevey/catsequences.git
To build catsequences type:
cc catsequences.c -o catsequences -lm
Copy the executable "catsequences" to somewhere on your path like "~/bin" to have access to it from anywhere.
Usage:
catsequences filename
where filename contains a list of files with sequences to be concatenated
The concatenated alignments are outputted to a file called "allseqs.fas"
Partition information will be written to the file "allseqs.partitions.txt"
The sequence names are read up to the first "." or "|" (or the end of the name)
The easiest way to create the list input file is to use a command like:
ls *.fasta > list
assuming that all your input file have the extension ".fasta"
The software will put in '?' for the entire length of any gene for which the species is missing.