Commit 7d60ad21 authored by Ryan Herbert's avatar Ryan Herbert
Browse files

sample_set.py multi stats abundance

add abundance of clones per germline in a barchart form.
parent 4c5cdad7
......@@ -673,7 +673,8 @@ def getStatHeaders():
#('bool_true', 'parser', b),
('loci', 'parser', l),
('distribution', 'parser', lbc),
('clones_five_percent', 'parser', m)
('clones_five_percent', 'parser', m),
('abundance', 'parser', lbc)
]
def getFusedStats(file_name, res, dest):
......@@ -695,6 +696,7 @@ def getFusedStats(file_name, res, dest):
dest['reads'] = reads
dest['mapped'] = "%d" % (data['reads']['segmented'][result_index])
dest['mapped_percent'] = 100.0 * (float(data['reads']['segmented'][result_index])/float(reads))
dest['abundance'] = [(key, 100.0*data['reads']['germline'][key][result_index]/reads) for key in data['reads']['germline']]
tmp = {}
for c in data['clones']:
......
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