BCB lab at EBD

Set up an environment to perform a a population genetics pipeline on data of the iberian lynx

Set up an environment to perform a pedigree reconstruction pipeline on data from the iberian lynx

Set up an environment to perform a sample-to-genotype assignment pipeline of the iberian lynx

Set up a customized environment to perform phylogenetic signal analysis in R using caper 1.0.4

Set up an R environment and libraries for performing phylogenetic beta-diversity analysis in R

Set up a customized environment to run FANTASIA and perform functional annotation of proteomes

Set up an R environment on Ubuntu (ape, picante, gawdis, lme4 and MuMIn) for phylogenetic analysis

Set up a bash environment to perform large-scale evolutionary inferences using BayesTraitsV5

ALife software platform for studying evolutionary processes using self-replicating computer programs

Set up an SFTP server in docker as the entry point for users to access a Kubernetes-managed cluster.

Set up NaMeco to carry out a metagenomic characterization of the intestinal microbiome using the 16S

Set up an environment for estimating genome length, sequencing coverage, and repeat spectra

Set up the Avida digital evolution platform for studying evolution and a python environment

Set up a python environment to develop GenAI algorithms to be used in Avida digital evolution

Set up an R environment and libraries for performing bayesian models: brms, cmdstanr and CmdStan

Set up an environment based on Ubuntu, containing the NetLogo simulation environment.

Set up an R environment for building stochastic phylogenetic trees using the randtip library

Set up an R environment for pylogenetic analysis, including ape, phytools, geiger, phangorn, picante

Set up an environment, based on Miniconda, containing python libraries to analyze satellite imagery

Set up RStudio, based on rocker/rstudio:4.5.2, with NetLogo (via OpenJDK) and the R library logolink

Set up an R environment with the library rTASSEL to perform genotype-phenotype associations.

Set up R + raster utils in docker as the entry point to access a Kubernetes-managed cluster.

Set up RStudio Server + Julia in docker as the entry point to access a Kubernetes-managed cluster.

Minimal Kubernetes distribution in docker to create and manage a cluster in your local computer.

Identify genomic variants using GATK

Sequence reads alignment to a reference genome using BWA