Table 1 Overview of the final, filtered RADseq assemblies, subsequent processing and corresponding analyses performed for G. childressi and B. heckerae
From: Genetic diversity and connectivity of chemosynthetic cold seep mussels from the U.S. Atlantic margin
Species | Assembly | # Loci | # SNPs | Analysis |
|---|---|---|---|---|
G. childressi | Final | 21,292 | 283,754b | SEQUOIA (relatedness) |
21,220 (unlinked) | STRUCTURE (population structure/admixture) | |||
Excluding missing dataa | 16,720 | 39,551 | BA3 (intra-site inbreeding), HWE tests (neutrality) | |
11,995 (neutral) | 1762 (unlinked) | Genetic diversity estimates, PCA, BA3 (inter-site migration) | ||
B. heckerae | Final | 4142 | 52,904b | SEQUOIA |
4114 (unlinked) | Genetic diversity estimates, PCA | |||
Combined bathymodioline reference | Final | 94,867 | 791,594 | pcadapt (outlier SNPs), REVIGO |