This is the first time I am using Velveth and velvetg. I have around 5 million read, which has 50-300bp. I used below cmd, and it work jusdt fine.
# velveth auto 31,45,2 -fastq -short -inputfile
# it gave me 7 file with kmer length 31,33,35,36,39,41 &43.
Can anybody please give me suggetion about which kmer length to select, do i need to use long or shord read in command?
How do I excecute velvetg cmd? What cutoff and min_contig_length to use?
Thanks in advance!