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Old 03-21-2011, 05:54 AM   #1
Junior Member
Location: Germany

Join Date: Mar 2011
Posts: 2
Default input files for IMAGE

Hi everybody,

I'm currently working on the assembly of two bacterial genome sequences from an illumina GAIIx sequencer. I have made a de novo assembly of the 50bp paired end reads with velvet and now would like to try to close some gaps with IMAGE.

In the very short description of IMAGE i found the following necessary input files:
a contigs.fa.original file in FASTA format.
a read.placed.original file containing a list of contigs within supercontigs.
Paired end Illumina fastq files (should be unzipped)

From Velvet I got the contigs.fa file and I have Paired end fastq files, but from which program will I get a read.placed.original file? Or did I miss some options for velvet?

I'm still quite new in the field of bioinformatics and not used to use linux, so could you please explain everything very simple

Maegwin is offline   Reply With Quote