Frequently Asked Questions
- How do I cite GiA Roots?
- Who developed GiA Roots?
- Is GiA Roots free?
- Who can use GiA Roots?
- What types of images work best in GiA Roots?
- I've got noise in my images, is that ok?
- Do you plan to release future versions of GiA Roots?
- Some common issues
Please cite as: Galkovskyi, T, Mileyko, Y., Bucksch, A., Moore, B., Symonova, O., Price, C.A., Topp, C.N., Iyer-Pascuzzi, A.S., Zurek, P.R., Fang, S., Harer, J., Benfey, P.N. and Weitz, J.S. (2012) GiA Roots: software for the high-throughput analysis of plant root system architecture. BMC Plant Biology. 12:116.
Yes, GiA Roots is free for use - in academic and non-academic settings. For the specific legal stuff, see the license on the download page. If you want to consider a donation to support future developments of root network analysis tools, please contact Joshua Weitz for more information -- noting that Georgia Institute of Technology is a non-profit institution.
Anybody. You do not need any programming or image analysis experience.
It designed to be simple and user friendly.
Advanced users can develop add-ons to the software, please see the manual for more details.
GiA Roots accepts images in JPG, TIFF, BMP and other standard formats. We recommend the use of images in which there is a strong contrast between root system and background. The background can be dark and the roots light, and vice-versa.
The answer is: it depends. GiA Roots has a number of automated tools, including cropping and thresholding that can assist in identifying roots and estimating root system architecture traits. However, we cannot guarantee that the built-in methods are suitable for the level of noise in every data set.
This is no longer the case - we do not plan to release more versions of GiA Roots. For new releases of similar software, please consider using DIRT or other software available on Plant Image Analysis.
Please note the following issues that can arise when using GiA Roots:
- GiA Roots presumes that the roots are mounted near the top line, hence network depth calculations require top-mounting of images.
- Note that the network width is defined as the widest horizontal width in any given raster line in the image, as per the definition in Table 1 of the original publication.
- The choice of foreground/background can be adjusted by the user, this is critical to ensure the correct functionality of GiA Roots.