format[source]

format(tpeds, tfam, prev=None, wild_pen=None, muta_pen=None, out_format='MERLIN', inherit_mode=None, theta_max=None, theta_inc=None)

format_plink[source]

format_plink(tped, tfam)

format_mega2[source]

format_mega2(tped, tfam)

format_merlin[source]

format_merlin(tped, tfam)

format_linkage[source]

format_linkage(tped, tfam, prev, wild_pen, muta_pen, inherit_mode, theta_max, theta_inc)

parse_tfam[source]

parse_tfam(fh)

class Pedigree[source]

Pedigree()

run_linkage[source]

run_linkage(blueprint, theta_inc, theta_max, to_plot=True)

linkage_worker[source]

linkage_worker(blueprint, workdir, theta_inc, theta_max, errfile, to_plot=True)

hinton[source]

hinton(filename, max_weight=None, ax=None)

heatmap[source]

heatmap(file, theta_inc, theta_max)

hlod_fun[source]

hlod_fun(Li, sign=1)

html[source]

html(theta_inc, theta_max, limit)

html_img[source]

html_img(ltype)

html_table[source]

html_table(type, theta_inc, theta_max, limit)