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Question: scrambled DNA generator
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gravatar for talgolan
4.1 years ago by
talgolan • 0
Israel
talgolan • 0 wrote:

Hi everyone,

I want to get from DNA interval (represented by coordinates- BED format) a matching scrambled one.

How can I do this? Can I use the galaxy for this application or maybe a bioconductor package (using R)?

Thanks
galaxy • 1.2k views
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modified 4.1 years ago by Bjoern Gruening ♦ 5.1k • written 4.1 years ago by talgolan • 0
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gravatar for Bjoern Gruening
4.1 years ago by
Bjoern Gruening ♦ 5.1k
Germany
Bjoern Gruening ♦ 5.1k wrote:

Hi,

I would do it with two steps.

First extract the sequences from your reference genome with "Extract genomic DNA". The resulting fasta file can be shuffled with an EMBOSS tool called "shuffleseq" and you are done.

Hope this helps,

Bjoern
ADD COMMENT • link written 4.1 years ago by Bjoern Gruening ♦ 5.1k
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