Difference between revisions of "Converting microarray images"
(→Imagemagick: Start mogrify part) |
m (→See also: Add help link) |
||
| Line 13: | Line 13: | ||
=See also= | =See also= | ||
*[http://www.imagemagick.org/script/index.php ImageMagick website] | *[http://www.imagemagick.org/script/index.php ImageMagick website] | ||
| + | *[http://www.imagemagick.org/script/command-line-tools.php Command line tool help] | ||
*[http://www.cit.gu.edu.au/~anthony/graphics/imagick6/thumbnails/ ImageMagick tips] | *[http://www.cit.gu.edu.au/~anthony/graphics/imagick6/thumbnails/ ImageMagick tips] | ||
*[http://www.imagemagick.org/script/index.php GIMP website] | *[http://www.imagemagick.org/script/index.php GIMP website] | ||
*[http://www.hydrus.org.uk/journal/gimp.html GIMP tips] | *[http://www.hydrus.org.uk/journal/gimp.html GIMP tips] | ||
Revision as of 23:06, 10 September 2006
Microarray images are generally stored as 16-bit TIFF images (usually around 100Mb in size. An alternative lossy image format is JPEG format, which is still bloated at around 40Mb filesize. Investigating the image size of a typical GenePix derived JPEG image, the pixel size is 4400 × 14300 pixels (72 pixels per inch) with an aspect ratio of 3.25 . A general visual summary of these lossy images is all that is required where they could be converted to a much smaller thumbnail PNG type image using an appropriate program such as ImageMagick or Gimp which allows batch processing of multiple images a once.
Imagemagick
The command line binary convert is useful for resizing images, for example;
|
convert -size 800x600 input.jpg'[80x60]' output.png |
will resize and convert a JPEG to a PNG. The command line tool mogrify will convert an entire directory of images; mogrify -format jpg -size 800x600 *.jpg
