Hi,
I'm quite new to bioinformatics, so please excuse the simplicity of this post.
I've sequenced a fungal genome (<40 Mbp) using the Ion Torrent platform. I created a fragment library, which means that I should now have single end reads (right?)
MIRA seemed like a good choice of assembler so I used that as well as CLC to assemble the reads into contigs, but now I'm stuck. I'd like to compare the qualities of the MIRA and CLC assemblies using CGAL, but I have no idea how to use the program.
I've read the CGAL paper, but I'm not sure where to begin running this program on the cluster at my school and I can't find much info on this program anywhere else. Does anyone have any experience/suggestions as to how I should proceed?
Thanks in advance!
I'm quite new to bioinformatics, so please excuse the simplicity of this post.
I've sequenced a fungal genome (<40 Mbp) using the Ion Torrent platform. I created a fragment library, which means that I should now have single end reads (right?)
MIRA seemed like a good choice of assembler so I used that as well as CLC to assemble the reads into contigs, but now I'm stuck. I'd like to compare the qualities of the MIRA and CLC assemblies using CGAL, but I have no idea how to use the program.
I've read the CGAL paper, but I'm not sure where to begin running this program on the cluster at my school and I can't find much info on this program anywhere else. Does anyone have any experience/suggestions as to how I should proceed?
Thanks in advance!
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