Dear all, As a part of my project, I had to assemble whole genome reads of a bacterial species in to contigs.
Unfortunately I had no access to Linux server to run algorithms like Velvet or Abyss.
CLC genomic workbench did not work on my system.
I decided to search for online tools, but even in Galaxy I did not find any algorithm except for Trinity which is a RNASeq assembly program.
As a test I used Trinity to assemble my DNASeq reads.
It produced 80 contigs . When I checked these contigs for Multi Locus Sequence Typing or Drug resistance typing which both are on the basis on alignment, I obtained 100% perfect match.
This somehow assured me that Trinity has assembled my reads correctly.
Now my question is, can I rely on the Trinity results?
I am looking forward your guides