Sylvain SCHMITT's repositories
sdmverse
sdmverse is a collaborative metapackage for listing all the metadata of the Species Distribution Modelling (SDM) packages. sdmverse includes a graphical interface available locally or online (see below). sdmverse integrates metadata from SDM packages and checks their validity against the CRAN metadata for perenity.
treegrowth
Variation in the growth potential of individual trees at the Paracou research station
genomeAnnotation
singularity & snakemake workflow to annotate genomes.
singularity-r-bioinfo
R and bioinformatic packages Singularity container
treespeciesDescriptors
Repository to develop descriptors of the environment and performance of tropical tree species in Paracou for the Camille and Sebastien analyses.
detectMutations
singularity & snakemake workflow to detect mutations with several tools to detect mutations
singularity-cdsapi
Singularity image for Python API to access the Copernicus Climate Data Store (CDS)
singularity-LoggingLab
R and LoggingLab package
singularity-r-bayesian
R and bayesian packages Singularity container
singularity-troll
TROLL and associated R packages Singularity container
smkTemplate
singularity & snakemake workflow template.
treemutation
Mutation in the tropical tree canopy
treemutation_codes
All code for Schmitt, S., Heuret, P., Troispoux, V., Beraud, M., Cazal, J., Chancerel, É., ... & Tysklind, N. (2024). Low-frequency somatic mutations are heritable in tropical trees Dicorynia guianensis and Sextonia rubra. Proceedings of the National Academy of Sciences, 121(10), e2313312121.
troll_eval
Evaluation of TROLL model version 4