Hi, I am looking for a software to detect the recombination breakpoint in a set of genes. Because I have a large set of genes, I hope to run the detection in a batch mode. then a software implemented in Linux is what I want. Unfortunately, few were found. DualBrother or Cbrother is one which can be implemented in linux, but there were errors when they were installing. it was devastating for me. So I am here to ask for help. Does anyone recommend a favorite and available method for detecting recombination breakpoints in linux?
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Ontheway •
You might want to try http://www.maths.bris.ac.uk/~madjl/finestructure/chromopainter_info.html
Should gene model be taken into account for the fasta passed to GARD? I could see arguments for keeping them in ( to retain the data) or taking them out (given exons will likely be under a different selective pressure)
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