View Single Post
Old 01-09-2014, 05:41 AM   #2
bambus
Member
 
Location: Germany

Join Date: Nov 2013
Posts: 20
Default

Hi,

I hope you would have got the solution for your query,if so can you please share it here as I too got stuck with the same problem.But,the only difference is that I am working with meta-transcriptomics data for which no reference genomes are available.So after assembly I mapped the original read file against the contig file and obtained an output in sam format.

Assemblers used:- SoapDenovo-Trans,Trinity,Metavelvet(didn't worked well with my data)
Mapping tools used :- Bowtie2,segemehl

It will be very helpful if you can post the procedure or steps you have gone through to get the desired information.

Thank you in advance.
bambus is offline   Reply With Quote