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08-01-2012, 02:23 AM
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#1 |
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Member
Location: US Join Date: Aug 2012
Posts: 15
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next generation sequencing simulation softwares
Hi
I need a next generation sequencing simulation software. I'v worked with "metasim" before but it has lots of bugs and does not work well!! I would be glad if somebody introduces best softwares. thank you all 
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08-01-2012, 11:54 AM
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#2 |
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Junior Member
Location: Europe Join Date: Mar 2012
Posts: 3
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Have a look at http://www.seqan.de/projects/mason/.
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08-01-2012, 12:06 PM
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#3 |
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Super Moderator
Location: US Join Date: Nov 2009
Posts: 436
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dgwsim is a good one by nils homer
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08-01-2012, 12:13 PM
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#4 |
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Member
Location: USA Join Date: Nov 2011
Posts: 22
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For simulating RNA-Seq data there BEERS by a group from U.PENN.
http://cbil.upenn.edu/BEERS/ |
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08-02-2012, 01:23 AM
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#5 |
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Member
Location: US Join Date: Aug 2012
Posts: 15
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thank you all
and witch one is suitable for simulating very long reads to get long stream of SNPs ? |
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12-14-2012, 03:43 AM
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#6 |
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Junior Member
Location: New York, USA Join Date: Aug 2012
Posts: 2
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02-11-2013, 06:34 AM
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#7 |
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Junior Member
Location: UK Join Date: Feb 2013
Posts: 1
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Dear all,
I am using MetaSim which doesn't produce .qual files. As explained at the FAQs, all inserted errors/substitutions are reported in the fasta header per read, that look like that: >r1.1 |SOURCES={GI=320159410,bw,1206304-1206640}|ERRORS={52_1:C,89_1:A,90_1:G,90_2:T,216_1:T}|SOURCE_1="Anaerolinea thermophila UNI-1" (0d34b7871fbf039b0739d6497bb075cffa74a470) Do you know any way to generate a .qual file from that information? Many thanks in advance! |
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