Question: Print Alignment To Poster Format
1
gravatar for Whetting
6.0 years ago by
Whetting1.5k
Bethesda, MD
Whetting1.5k wrote:

Hi Biostars,
I would like to print an alignment of 241 sequences (~10,000 bp in length). I would likely print them on poster format (we have our own plotter). I am just worried about resolution. Does anyone know of an alignment editor that saves the alignment in some kind of scalable format? thanks

sequence alignment • 2.0k views
ADD COMMENTlink written 6.0 years ago by Whetting1.5k

You can probably just copy the alignment text and save it as a pdf. Why are you printing out this alignment? Perhaps just highlighting domains or regions on your 241 sequences would be more informative than a huge alignment.

ADD REPLYlink written 6.0 years ago by Damian Kao15k

I agree, it would be more informative to print domains, but I just think it would be really cool to see it, stare at it, you know almost like the matrix :)

ADD REPLYlink written 6.0 years ago by Whetting1.5k

Almost identical question: http://www.biostars.org/post/show/18793/protein-alignment-tool-with-vector-graphics-output/

ADD REPLYlink written 6.0 years ago by Neilfws48k
4
gravatar for a.zielezinski
6.0 years ago by
a.zielezinski8.4k
a.zielezinski8.4k wrote:

Use Jalview, a multiple sequence alignment editor. The alignment view can be exported as a document, bitmap or vector image via the File→Export menu:

  • HTML - for viewing in a web browser. Then, you can save an alignment view as the PDF file (File → Print → Save as PDF in all modern browser)
  • PNG - a Portable Networks Graphics image
  • EPS - an Encapsulated Postscript Document

The EPS file generated by Jalview or the PDF file created by your web browser contains vector graphics which are directly editable in graphics applications such as Adobe Illustrator or Inkscape. It means you can rescale your alignment image without loss of clarity.

ADD COMMENTlink modified 6.0 years ago • written 6.0 years ago by a.zielezinski8.4k
1
gravatar for Zev.Kronenberg
6.0 years ago by
United States
Zev.Kronenberg11k wrote:

LaTeX is awesome. I use TexShade all the time for this purpose.

I think there are some online tools so you don't have to code in LaTeX.

http://www.uni-kiel.de/Pharmazie/chem/Prof_Beitz/pdf/texshade.pdf

Edit:: yup you can Tex via biology workbench:

http://molbiol-tools.ca/Alignments.htm

ADD COMMENTlink modified 6.0 years ago • written 6.0 years ago by Zev.Kronenberg11k
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