This is a test version of Biostars. For the public version, visit https://www.biostars.org.
How to generate NCBI ORF finder's type chart/image?

How to generate a image/chart like above NCBI ORF finder's image?

Would R be able to do it or there are other tools can do it?

Thanks.

NCBI ORF finder

rna-seq gene next-gen
• 4,610 views • link
updated by Ram Ram • written by xiangwulu • xiangwulu

1 answer

I quickly wrote a basic HTML-based ORF finder: http://lindenb.github.io/pages/orffinder/orffinder.html. It generates a SVG image: you can select-all + edit-selection+ save the SVG section and edit it in inkscape.

http://i.imgur.com/OiZqDw8.jpg

• 0 views • link
updated by Ram Ram • written by Pierre Lindenbaum Pierre Lindenbaum

Hi, thanks for your answer. On the page you showed, there is a testarea for the input, but how to 'run' it to get the image? Look at the sample image you have, this is something I wanted to do, by using R with the orf results like this:

Frame        from           to     Length
+2           215     ..     1849   1635
+3           222     ..     476    255
+3           3       ..     212    210
-3           2511    ..     2690   180
+3           1713    ..     1877   165
-1           80      ..     235    156

Thanks.

• 0 views • link
updated by Ram Ram • written by xiangwulu • xiangwulu

Log in to answer this question.

More posts like this