Databases containing regenerative traits of Arctic species
SeedArc – primary data from seed germination experiments: https://www.unioviedo.es/seedarc/index.html
Seed Information Database (SID) – seed biological trait data: https://ser-sid.org/
TRY (only seed mass) – https://www.try-db.org/TryWeb/Home.php
Rosbakh, S., et al. (2023). Global seed dormancy patterns are driven by macroclimate but not fire regime. Publication dataset: https://docs.google.com/spreadsheets/d/1Ps77kB9FeUKkWdRBIJkb0oRCD3kr_QyP/edit?usp=drive_link&ouid=102809933682675944502&rtpof=true&sd=true
Rosbakh, S., Baskin, C. C., & Baskin, J. M. (2020). Nikolaeva et al.’s reference book on seed dormancy and germination. Publication dataset: https://drive.google.com/file/d/18dmeNVhoR9H2-W7gvXOZN0FvcVoX6ymd/view?usp=drive_link
R Packages
germinationmetrics — computes time‐to‐germination, uniformity, synchrony, mean germination time, etc.
GerminaR — tools for calculating germination indices, rates, and plotting germination curves.
SeedGerm — functions for time‐to‐event analysis of germination, parametric and nonparametric approaches.
drc (Dose–Response Curves) — widely used for modelling germination responses to environmental gradients (water potential, temperature, chemicals).
drcSeedGerm — an extension of drc with models specifically for seed germination (thermal time, hydrotime).
survival — Cox proportional hazards, Kaplan–Meier, parametric survival models; useful for analysing germination time data.
lme4 / glmmTMB — GLMM frameworks for germination proportions, repeated measures, random effects.
mgcv — generalized additive models (nonlinear germination curves, smooth effects of temperature/water).
emmeans — post hoc contrasts and marginal means for germination models.
Software
Traitor – a novel tool to extract morphological traits from images: https://github.com/TankredO/traitor
ImageJ – a classic and reliable software for measuring seed/plant traits: https://imagej.net/ij/index.html
SmartGrain – good for measuring seed size and shape: https://www.kazusa.or.jp/kazusalab/smartgrain.html
Apps
CountThings – useful to estimate the number of collected seeds: https://countthings.com/en/
SeedCounter – useful to estimate the number of collected seeds: https://play.google.com/store/apps/details?id=org.wheatdb.seedcounter
EasyLeafArea – originally for leaf area, but works well for seed counts or cotyledon areas from scanned images: https://github.com/heaslon/Easy-Leaf-Area