Mercurial > repos > drosofff > msp_sr_readmap_and_size_histograms

comparison readmap.py @ 5:bcc0c7093e7a draft

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/msp_sr_readmap_and_size_histograms commit 9237338d798251fb2667280d597746e852f3ffcc-dirty
author mvdbeek
date Thu, 04 Feb 2016 06:27:43 -0500
parents 4efe210c91f3
children be0c6b6466cc
comparison
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4:4efe210c91f3 5:bcc0c7093e7a
75 """ 75 """
76 gene, coordinate, count, orientation = item.split("\t") 76 gene, coordinate, count, orientation = item.split("\t")
77 return gene, coordinate, count, orientation 77 return gene, coordinate, count, orientation
78 78
79 def lookup_gene_length(gene, readDict): 79 def lookup_gene_length(gene, readDict):
80 return readDict[readDict.keys()[0]].instanceDict.values()[0].size 80 return readDict[readDict.keys()[0]].instanceDict[gene].size
81 81
82 def handle_start_stop_coordinates(plottable, readDict): 82 def handle_start_stop_coordinates(plottable, readDict):
83 """ 83 """
84 To ensure that the plot area always includes the correct start and end coordinates, 84 To ensure that the plot area always includes the correct start and end coordinates,
85 we add an entry at start [coordinate 0] and end [last coordinate] of count 0, if these do not exist. 85 we add an entry at start [coordinate 0] and end [last coordinate] of count 0, if these do not exist.