Orignal Data Download

This page presents links to original data and some analysis software grouped by the publication reporting the results.

Moore CR, Johnson LS, Kwak I-Y, Livny M, Broman KW, Spalding EP (2013) High-throughput image analysis and computation introduces the time axis to a genetic architecture map of Arabidopsis root gravitropism. Genetics online early

  • Raw images in compressed folders plus a ReadMe file are here for RIL1, here for RIL2, and here for NIL.
  • Compiled Matlab image processing code used to generate the phenotype data is here for Macintosh and here for Linux, and here is the uncompiled Matlab source code of a very similar version.
  • The R package used to map QTL with the SLOD or MLOD statistic is available here.
  • The phenotype (tip angles) and QTL data including R qtl input files are available here and soon will also be available at http://qtlarchive.org.
  • The QTL data used to create the plots in Figure 4 plus the MLOD results are here.

    • Moore CR, Gronwall DS, Miller ND, Spalding EP (2013) Mapping quantitative trait loci affecting Arabidopsis thaliana seed morphology features extracted computationally from images. G3: Genes, Genomes, Genetics 3: 109-118.

    Here are compressed folders containing images of populations of seeds and the extracted features datasets referred to in the publication as RIL1, RIL2, NIL. Also, the Matlab computer code used to extract the phenotype features from the images is available for download.

    Miller ND, Durham Brooks TL, Assadi AH, and Spalding EP (2010) Detection of a gravitropism phenotype in glutamate receptor-like 3.3 mutants of Arabidopsis thaliana using machine vision and computation. Genetics 186: 585-593.

    Links are to zipped folders containing many trials (times series of images) of the indicated roots undergoing gravitropism.
  • 2 day old seedlings from small seeds: wild type glr3.3-1 glr3.3-2
  • 4 day old seedlings from small seeds: wild type glr3.3-1 glr3.3-2
  • 2 day old seedlings from large seeds: wild type glr3.3-1 glr3.3-2
  • 4 day old seedlings from large seeds: wild type glr3.3-1 glr3.3-2
  • 4 day old seedlings from 2nd generation of small seeds: wild type glr3.3-1 glr3.3-2