Question

What Ngs Read Simulators Are Available For Single-End 35Base Pair Length Data?

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12.7 years ago

Chintzz • 0

I want to generate small RNA data for illumina.

Can anyone suggest the tool to simulate 35 basepair length data for illumina in fastq or fasta format?

I have tried ART (set of simulation tools). But the mapping data is not as expected for small RNA data.

small mirna simulation next-gen sequencing • 3.6k views

ADD COMMENT • link updated 12.4 years ago by Zhidkov ▴ 600 • written 12.7 years ago by Chintzz • 0

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Can you explain "mapping data is not as expected for small RNA data"?

ADD REPLY • link 12.7 years ago by Pascal ★ 1.5k

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More specifics on how you generated the data are warranted, probably.

ADD REPLY • link 12.7 years ago by Sean Davis 27k

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You can use the NGS:Simulation tool, available here Galaxy

ADD REPLY • link 12.7 years ago by Zhidkov ▴ 600

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@pascal: only 1 or 2 reads mapped on the complete genome.I would say there wasnt any mapping...!! @Sean Davin: According to me atleast 3 reads should map onto mature miRNA to prove that it is present!!

ADD REPLY • link 12.7 years ago by Chintzz • 0

Ram · Answer 1 · 2012-03-12

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12.7 years ago

Zhidkov ▴ 600

Take a look at previous thread,[?] NGS:Simulation tool, available here Galaxy[?]
There are several other tools availble for fastq simulation:[?] Mason[?] simulateSeq.pl[?]

Ilia

ADD COMMENT • link updated 5.2 years ago by Ram 44k • written 12.7 years ago by Zhidkov ▴ 600