Google announced you can now export many of the reports from Google Webmaster Tools directly into Google Spreadsheets.
Previous, you were able to export these reports as CSV or use a Python scripts or the API to export data from the tool.
Googler, Pierre Far, said on Google+:
Remember that Top Search Queries and Top Pages have a very powerful filtering feature allowing to filter the data by:
1. Type of search (web search, images, searches from smartphones, etc)
2. The location of the searcher around the world
3. And filter by different types of queries
To export the data, click the download data button and a "Select Download Format" option box will pop up where you can choose to download the data as "CSV" or "Google Docs."
Forum discussion at Google+.