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annotate test-data/my_genome_verbose_summary.txt @ 3:24e471d13fe9 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
author iuc
date Thu, 30 Jun 2022 22:45:21 +0000
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24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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1 1n coverage estimates (Coverage of every haplotype; Don't confuse with genome coverage which is (ploidy * 1n coverage).)
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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2 * User defined 1n coverage:
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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3 * Subset 1n coverage estimate: 24.6
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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4 * Highest peak 1n coverage estimate: 25
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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5 1n coverage used in smudgeplot (one of the three above): 25
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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6 * Proposed ploidy: 2
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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7 * Minimal number of heterozygous loci: 47
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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8 Note: This number is NOT an estimate of the total number heterozygous loci, it's merly setting the lower boundary if the inference of heterozygosity peaks is correct.
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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9 * Proportion of heterozygosity carried by pairs in different genome copies (table)
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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10 genome_copies propotion_of_heterozygosity
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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11 1 2 1
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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12 * Proportion of heterozygosity carried by paralogs: 0
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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13 * Summary of all detected peaks (table)
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
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14 peak kmers [#] kmers [proportion] summit B / (A + B) summit A + B
24e471d13fe9 planemo upload for repository https://github.com/galaxyproject/tools-iuc commit cbe90253166d9908b68beb36b9488478178d225b
iuc
parents:
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15 1 AB 973 1 0.49 47.57