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Old 08-22-2013, 04:41 AM   #4
Location: Hangzhou, China

Join Date: Jan 2013
Posts: 28

Originally Posted by francesco.vezzi View Post
MIRA3 is probably what you need...
Remember that SOAPdenovo gives as output a file named *.scafSeq that contains the scaffolds (from my experience the contig file contains a lot of very short and repetitive contigs often shorter than the read length!!!)

Another solution is to give the output of the two assemblers as input for a "standard" assembler like PCAP or ARACHNE...

Anyway I think that you resources are really too low...
if my data is 454 sequencing data from cDNA, is it necessary to generate scaffolds? OR can the scaffolds make any sense?
hugh_hang is offline   Reply With Quote