.I use this basic command to cluster my data
meshclust fasta_file_query_enzymes.fasta --id 0.95 --kmer 3 --delta 10 --output ?????? --iterations 20 --align --sample 3000 --pivot 40 --threads TMAX
In the first part of the command, I put the name of the file containing all protein sequences in FASTA format. To begin with, I don't want to change the default parameters, I just want to see if I can run this command and get a result. What should I write in the output section?
I entered a full path directory that I want the results to be saved to I created an empty fill, and put its name in the place of the question mark, I thought it might work I experienced the same problem when I tried to use CD-HIT, I didn't get an output. What I'm doing wrong?
Any suggestions are welcomed
what was this problem ? what was the error message(s) ? what did you use as a replacement of
?????I didn't get an Error message, just the guide mesh cluster like present her - https://github.com/BioinformaticsToolsmith/MeShClust
instead of ???? I wrote the full directory path to which I want the results saved. The second option I tried was to create an empty file and name it in the output part.
I guess neither way is right if I don't get a result...
I would appreciate it if you could give me an example of how to do it correctly.