created by David Ries
From a vcf file for two pools of a mapping-by-sequencing experiment, create a plot of allele frequencies and identify segregating intervals. The intervals can be visually determined. Also, an algorithm tries to identify stretches identical to the reference, in both pools respectively.
This was used for
Capistrano-Gossmann, G. G., Ries, D., Holtgräwe, D., Minoche, A., Kraft, T., Frerichmann, S. L. M., … Kopisch-Obuch, F. J. (2017). Crop wild relative populations of Beta vulgaris allow direct mapping of agronomically important genes. Nature Communications, 8, 15708. https://doi.org/10.1038/ncomms15708 Ries, D., Holtgräwe, D., Viehöver, P., & Weisshaar, B. (2016). Rapid gene identification in sugar beet using deep sequencing of DNA from phenotypic pools selected from breeding panels. BMC Genomics, 17(1), 236. https://doi.org/10.1186/s12864-016-2566-9
This is not actively maintained at the moment