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Created with Raphaël 2.2.07Mar5422Nov2116157Sep64131Aug29252321Delete sumulation.vbamainmainUpdate README.mdAdd LICENSEupdate READMEupdate READMEMerge branch 'master' into mainDelete README.mdInitial commitadd authors and description to READMErename main python script to popsimul.pyMerge branch 'refactoring++' into 'master'resimulate if no crossing over, generate a VCF file with simulated data with no noise or sequencing error and some refactoringMerge branch 'add-commandline-args' into 'master'update command line in README with right parametersupdate default value of chr_bpupdate parameters chr_size and replace marker_density by nb_markersinitiate a READMEadd parameters to run the script with commandline argumentsMerge branch 'errorrates' into 'master're-correct output file namesRound mean depth for parents allele depth to remove issues with 1.5x mean coverageMerge branch 'errorrates' into 'master'Correcting header Breakpoints.csvremove useless commas and variableresolve mergegenerate output file with breakpointsUpdate comments and delete unused section of script.fix adding errorRates and returning 2 genotypes matrix (with and without errors)errorRates added to allele depth computation and reestimation of genotypes according to these values.fix wrong paramater given for conversion_factor in generate_individuals functionCorrect vcf output and correct kosambi formulaMerge branch 'comments' into 'master'return 0/1 instead of AB in vcfmultiple fixesgausse to poisson, fix positions extracted from generate_chrom_for_one_indRewrite comments and clean unused sectionsRewrite comments and clean unused sectionsfix errors writing vcf filefusion of simulation.vba and cecile methodAdd simulation.vba