def name(fN):
if __name__ == "__main__":
import sys
if sys.argv[1] == "help":
bioLibCG.gd(sys.argv[0])
else:
bioLibCG.submitArgs(globals()[sys.argv[1]], sys.argv[1:])
#fracs = pieFractions(counts)
plots_labels = [[], []]
for con in context_level_count:
x = []
y = []
sortedLevs = sorted(context_level_count[con].keys())
for lev in sortedLevs:
x.append(lev)
y.append(context_level_count[con][lev])
plots_labels[0].append(plt.plot(
x,
y,
))
plots_labels[1].append(con)
#plot
plt.legend(plots_labels[0], plots_labels[1])
plt.title(
'oRNA Targets\' Context Proportion Stability w/ Expression Increase')
plt.xlabel('Degradome Expression Cutoff')
plt.ylabel('Number of oRNA Targets')
plt.show()
if __name__ == "__main__":
import sys
if sys.argv[1] == "help":
bioLibCG.gd(sys.argv[0])
else:
bioLibCG.submitArgs(globals()[sys.argv[1]], sys.argv[1:])
#3UTR
if strand == '1':
if cEnd + 1 == tStart or cEnd + 1 == tEnd + 1:
p.tell('3 is none')
c += 1
if codingStatus:
e += 1
range3 = ()
else:
range3 = (cEnd + 1, tEnd)
else:
if cStart == tStart or cStart == tEnd + 1:
p.tell('3 is none')
c += 1
if codingStatus:
e += 1
range3 = ()
else:
range3 = (tStart, cStart - 1)
a += 1
print a, b, c, d, e
if __name__ == "__main__":
import sys
if sys.argv[1] == "help":
bioLibCG.gd(sys.argv[0])
else:
bioLibCG.submitArgs(globals()[sys.argv[1]], sys.argv[1:])
'tRNA_pseudogene_noncoding',
'pseudogene_noncoding',
'protein_coding',
'None']
ds = cg.dominantSpotter(domOrder)
for oID in oNX.tcc:
oChrom, oStrand, start, end = cg.tccSplit(oNX.tcc[oID])
if oChrom == chrom and oStrand == strand:
tranTypes = coord_types.get(start, 'None').split(',')
types = [x.split(':')[1] if x != 'None' else 'None' for x in tranTypes]
types = list(set(types))
oNX.transcriptTypes[oID] = types
oNX.transcriptType[oID] = ds.spotItem(types)
oNX.save()
if __name__ == "__main__":
import sys
if sys.argv[1] == 'help':
cg.gd(sys.argv[0])
else:
cg.submitArgs(globals()[sys.argv[1]], sys.argv[1:])
'tRNA_pseudogene_noncoding',
'pseudogene_noncoding',
'protein_coding',
'None']
ds = cg.dominantSpotter(domOrder)
for oID in oNX.tcc:
oChrom, oStrand, start, end = cg.tccSplit(oNX.tcc[oID])
if oChrom == chrom and oStrand == strand:
tranTypes = coord_types.get(start, 'None').split(',')
types = [x.split(':')[1] if x != 'None' else 'None' for x in tranTypes]
types = list(set(types))
oNX.transcriptTypes[oID] = types
oNX.transcriptType[oID] = ds.spotItem(types)
oNX.save()
if __name__ == "__main__":
import sys
if sys.argv[1] == 'help':
cg.gd(sys.argv[0])
else:
cg.submitArgs(globals()[sys.argv[1]], sys.argv[1:])