diff test-data/smudgeplot_verbose_summary.txt @ 0:6af76d4371f8 draft

planemo upload for repository https://github.com/ERGA-consortium/EARs/tree/main commit a08f73e00550020ac83f4d45045075962a8a2251

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+1n coverage estimates (Coverage of every haplotype; Don't confuse with genome coverage which is (ploidy * 1n coverage).)
+* User defined 1n coverage:	
+* Subset 1n coverage estimate:	41.7
+* Highest peak 1n coverage estimate:	35.2
+1n coverage used in smudgeplot (one of the three above):	41.7
+* Proposed ploidy:	2
+* Minimal number of heterozygous loci:	23132
+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.
+* Proportion of heterozygosity carried by pairs in different genome copies (table)
+  genome_copies propotion_of_heterozygosity
+1             2                        0.53
+2             3                        0.00
+3             4                        0.22
+4             5                        0.11
+5             6                        0.14
+* Proportion of heterozygosity carried by paralogs:	0.473
+* Summary of all detected peaks (table)
+    peak kmers [#] kmers [proportion] summit B / (A + B) summit A + B
+1     AB    255991               0.53               0.49        98.62
+3   AAAB    107728               0.22               0.33       160.51
+5 AAAAAB     68379               0.14               0.19       253.34
+4  AAAAB     53663               0.11               0.25       206.92