de novo assembler for se 36 bp illumina reads

srividyanathan · 04-26-2013, 04:34 AM

Hi,

I am wondering if there is any de novo assembler that can work with 25x coverage 36 bp solexa reads. I saw that a few requires paired end reads to work with. Some others require longer reads. Can anyone suggest any software that can work with these reads,

thank you,

mastal · 04-26-2013, 05:07 AM

Velvet should work.

sivasubramani · 05-28-2013, 08:52 AM

try minia... fast and memory efficient..

Good luck..

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04-26-2013, 04:34 AM	#1
srividyanathan Junior Member Location: london Join Date: Apr 2013 Posts: 1	de novo assembler for se 36 bp illumina reads Hi, I am wondering if there is any de novo assembler that can work with 25x coverage 36 bp solexa reads. I saw that a few requires paired end reads to work with. Some others require longer reads. Can anyone suggest any software that can work with these reads, thank you,

04-26-2013, 05:07 AM	#2
mastal Senior Member Location: uk Join Date: Mar 2009 Posts: 667	de novo assembler for se 36 bp illumina reads Velvet should work.

05-28-2013, 08:52 AM	#3
sivasubramani Member Location: India Join Date: Apr 2011 Posts: 14	try minia... fast and memory efficient.. Good luck..