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comparison ideas.R @ 179:f32f15562a82 draft

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Uploaded
author greg
date Thu, 25 Jan 2018 13:51:07 -0500
parents 2b6b5e2769f5
children 475fa65d5138
comparison
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178:12168e1e4859 179:f32f15562a82
358 } 358 }
359 if (is.null(opt$chromosome_windows)) { 359 if (is.null(opt$chromosome_windows)) {
360 windows_by_chrom = NULL; 360 windows_by_chrom = NULL;
361 } else { 361 } else {
362 # Read chromosome_windows.txt into memory. 362 # Read chromosome_windows.txt into memory.
363 windows_by_chrom = get_windows_by_chrom(chromosome_windows); 363 windows_by_chrom = get_windows_by_chrom(opt$chromosome_windows);
364 } 364 }
365 base_cmd = get_base_cmd(opt$ideas_input_config, opt$chrom_bed_input, opt$training_iterations, opt$bychr, opt$hp, 365 base_cmd = get_base_cmd(opt$ideas_input_config, opt$chrom_bed_input, opt$training_iterations, opt$bychr, opt$hp,
366 opt$standardize_datasets, opt$log2, opt$max_states, opt$initial_states, opt$max_position_classes, 366 opt$standardize_datasets, opt$log2, opt$max_states, opt$initial_states, opt$max_position_classes,
367 opt$max_cell_type_clusters, opt$prior_concentration, opt$burnin_num, opt$mcmc_num, opt$minerr, 367 opt$max_cell_type_clusters, opt$prior_concentration, opt$burnin_num, opt$mcmc_num, opt$minerr,
368 opt$maxerr, opt$rseed, opt$thread); 368 opt$maxerr, opt$rseed, opt$thread);