Department of Bioinformatics and Computational Biology

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How to capture high quality images for publication

The method used to capture high quality images can vary depending on the web browser and the operating system you use. Here is what we do:

We will introduce a list of file conversion and image editor applications we use in the following paragraphs.

Save a web page to a PDF file

For Next Generation Clustered Heat Maps (NG-CHM) user

Go to the top of the web page, click Misc -> PDF, save the generated PDF to your local hard disk.

For other software applications user


Chrome (e.g. version 36.0) will capture high quality images on either Mac (version 10.8.5 and above) or Windows (version 8 and above).

After opening the web page in Chrome, follow these steps:

Please refer to Google’s Chrome Support link:


Safari (e.g. version 6.0.5) will capture high quality images on a Mac (e.g. version 10.8.5).

After opening the web page in Safari, do


For Linux user, after opening the web page in Firefox (e.g. Version 24.6), do

On Windows and Mac, Firefox (e.g. Version 31.0) has the Adobe Acrobat PDF plugin automatically installed. We found this combination failed to capture high resolution of the graphics which are generated in our web pages. If you save a web page using Adobe Acrobat PDF plugin, it generates a low resolution PDF file that can’t be used to convert to an image file for publication purpose. This is not recommended for Windows and Mac user.

Convert a PDF file to an image file

You can use various file conversion applications(e.g. Adobe Acrobat Pro, Preview, GIMP) to convert a PDF file to other image formats (e.g. PNG, TIFF, etc.). Different conversion applications will have different methods to save images into a new format. For example:

ImageMagick command line tool convert can convert a PDF file to an image file. You can use the density option to obtain a high quality image. For example:

convert -density 300 my.pdf my.png

Please refer to ImageMagick to install ImageMagic for Windows and Linux. Be aware of installing Ghostscript before using ImageMagick PDF file conversion.


For Linux user, If you open the PDF file in Adobe Reader, for example Adobe Reader9, do

Paste to an image editor, the image quality might be all right. However,

For Windows and Mac, Adobe Reader does not have Save As Other->Image option. From our experience, to process with Adobe Reader, Edit- > Take a Snapshot, the images are in low resolution. So we do not recommend Adobe Reader as a conversion tool for Mac and Windows.

Edit an image file

There are many image editors such as GIMP, Adobe Photoshop and Paint that allow you to crop or annotate the image.