Closed dcm9123 closed 5 years ago
Hi! I was just wondering if the --derep_fulllength with the option of --sizeoutgenerates the appropriate abundance values required by swarm?
--derep_fulllength
--sizeout
One of my output sequences from this generator is the following:
>797d2f73bb1f3a506c560c8ad547cb7cbf74a8a7;size=36 GTATTGACAGGTTATAGTTTATTTCAAAAGGAAAAAATGGTATTAAATGAAGGAACAAGTGGAACAGCTGTTACAACTAGTACACCTGGTTCAAAGGGTTCAGTTACTTCAGGTGGTTCAGGTGGTTCAGGTGGTTCAGGTGCTACAGTACCTTCA
Does this mean that if I replace the ';' that separates the header from the size with a '_', it will serve as the required abundance values for swarm?
Thanks!
@dcastaneda5 you can use swarm with the -z option to accept ;size=INTEGER as abundance values.
-z
;size=INTEGER
That worked! Thanks a lot!
Hi! I was just wondering if the
--derep_fulllength
with the option of--sizeout
generates the appropriate abundance values required by swarm?One of my output sequences from this generator is the following:
Does this mean that if I replace the ';' that separates the header from the size with a '_', it will serve as the required abundance values for swarm?
Thanks!