15 research outputs found
Pfeiffer et al_JOH-2010-168.R1_Mercurialis_01matrices
Primary data: 01 matrices (3 scoring routines) for the SSR fingerprinting (8 loci) in polyploid Mercurialis perennis; see sheet "Description" for further detail
SNP_data
Raw SNP data called from transcriptome accession no.: JV134525–JV157085 TSA NCBI, and inferred SNP data using the software PHAS
IBE_vs_IBD_tests
R scripts to perform the Mantel tests for detecting isolation-by-distance and isolation by-environment patterns using the ecodist packag
environmental_data
A list of environmental variables characterizing the four studied sites from southern France (Ventoux, Lure, Issole and VĂ©subie
KASP_details
Sequences (raw data) on which primer design for KASP assay was based and SNPs therei
common_garden_data_and_Qst-Fst_tests
A series of files containing common garden data (budburst, survival and growth) from a nursery tests (see Sagnard et al. 2002) and R scripts to perform the Qst-Fst tests with the QstFstComp packag
Hierarchical (multi-site) outlier detection.
<p>Result of HBM (hierarchical Bayesian approach) on the complete <i>A</i>. <i>alba</i> dataset. <i>θ</i><sub><i>Elev(m)</i></sub> are locus-specific effects on genetic differentiation among populations belonging to different elevations. On the left, the estimated values of <i>θ</i><sub><i>Elev(m)</i></sub> with their 95% posterior credible intervals. The markers are sorted by decreasing values of <i>θ</i><sub><i>Elev(m)</i></sub> and the dotted lines represent the inter-quantile limits [Q<sub>1</sub>-1.5(Q<sub>3</sub>-Q<sub>1</sub>); Q<sub>3</sub>+1.5(Q<sub>3</sub>-Q<sub>1</sub>)]. On the right, the distribution of <i>θ</i><sub><i>Elev(m)</i></sub> and the fitted normal distribution. The arrow indicates the two loci detected below the neutral background in the complete dataset under a 1% probability threshold.</p
<i>A</i>. <i>alba</i> and <i>A</i>. <i>cephalonica</i> study sites and sampling design.
<p><i>A</i>. <i>alba</i> and <i>A</i>. <i>cephalonica</i> study sites and sampling design.</p