Mercurial > repos > mheinzl > variant_analyzer2

comparison read2mut.py @ 25:6ee7044d93b0 draft

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planemo upload for repository https://github.com/Single-Molecule-Genetics/VariantAnalyzerGalaxy/tree/master/tools/variant_analyzer commit ee4a8e6cf290e6c8a4d55f9cd2839d60ab3b11c8
author mheinzl
date Mon, 22 Feb 2021 16:38:33 +0000
parents cf6f0fb05bad
children 5cb0bdd578cf
comparison
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24:cf6f0fb05bad 25:6ee7044d93b0
765 if high_tiers == len(tiers): 765 if high_tiers == len(tiers):
766 chimeric_dcs_high_tiers += high_tiers - 1 766 chimeric_dcs_high_tiers += high_tiers - 1
767 else: 767 else:
768 chimeric_dcs_high_tiers += high_tiers 768 chimeric_dcs_high_tiers += high_tiers
769 chimera_dict[key1] = (chimeric_dcs, chimeric_dcs_high_tiers) 769 chimera_dict[key1] = (chimeric_dcs, chimeric_dcs_high_tiers)
770 csv_data.close() 770 csv_writer.close()
771 771
772 # sheet 2 772 # sheet 2
773 if chimera_correction: 773 if chimera_correction:
774 header_line2 = ('variant ID', 'cvrg', 'AC alt (all tiers)', 'AF (all tiers)', 'chimeras in AC alt (all tiers)', 'chimera-corrected cvrg', 'chimera-corrected AF (all tiers)', 'cvrg (tiers 1.1-2.4)', 'AC alt (tiers 1.1-2.4)', 'AF (tiers 1.1-2.4)', 'chimeras in AC alt (tiers 1.1-2.4)', 'chimera-corrected cvrg (tiers 1.1-2.4)', 'chimera-corrected AF (tiers 1.1-2.4)', 'AC alt (orginal DCS)', 'AF (original DCS)', 774 header_line2 = ('variant ID', 'cvrg', 'AC alt (all tiers)', 'AF (all tiers)', 'chimeras in AC alt (all tiers)', 'chimera-corrected cvrg', 'chimera-corrected AF (all tiers)', 'cvrg (tiers 1.1-2.4)', 'AC alt (tiers 1.1-2.4)', 'AF (tiers 1.1-2.4)', 'chimeras in AC alt (tiers 1.1-2.4)', 'chimera-corrected cvrg (tiers 1.1-2.4)', 'chimera-corrected AF (tiers 1.1-2.4)', 'AC alt (orginal DCS)', 'AF (original DCS)',
775 'tier 1.1', 'tier 1.2', 'tier 2.1', 'tier 2.2', 'tier 2.3', 'tier 2.4', 775 'tier 1.1', 'tier 1.2', 'tier 2.1', 'tier 2.2', 'tier 2.3', 'tier 2.4',