Pinned Repositories
2022_DIGIT-BIO_workshop
2022 DIGIT BIO workshop materials: "Do my clusters make sense? Some statistical and biological clues to help..."
coseq
Co-Expression Analysis of Sequencing Data
CV
ebdbNet
Infer the adjacency matrix of a network from time course data using an empirical Bayes estimation procedure based on Dynamic Bayesian Networks.
EDGE-in-TCGA
Source code to reproduce results from "Exploring Drivers of Gene Expression in The Cancer Genome Atlas" by Rau et al. (2017)
HTSFilter
Filter replicated high-throughput transcriptome sequencing data
maskmeans
Multi-view agglomeration/splitting K-means clustering algorithm
padma
Pathway deviation scores using multiple factor analysis
rosetta
Regeneration Rosetta: An interactive R/Shiny app to explore regeneration-associated gene expression and chromatin accessibility
rpl
Randomized pairwise likelihood method for complex statistical inferences
andreamrau's Repositories
andreamrau/EDGE-in-TCGA
Source code to reproduce results from "Exploring Drivers of Gene Expression in The Cancer Genome Atlas" by Rau et al. (2017)
andreamrau/coseq
Co-Expression Analysis of Sequencing Data
andreamrau/ebdbNet
Infer the adjacency matrix of a network from time course data using an empirical Bayes estimation procedure based on Dynamic Bayesian Networks.
andreamrau/maskmeans
Multi-view agglomeration/splitting K-means clustering algorithm
andreamrau/padma
Pathway deviation scores using multiple factor analysis
andreamrau/rosetta
Regeneration Rosetta: An interactive R/Shiny app to explore regeneration-associated gene expression and chromatin accessibility
andreamrau/rpl
Randomized pairwise likelihood method for complex statistical inferences
andreamrau/2022_DIGIT-BIO_workshop
2022 DIGIT BIO workshop materials: "Do my clusters make sense? Some statistical and biological clues to help..."
andreamrau/CV
andreamrau/tidyqtldb
Format AnimalQTLdb annotations for use with BayesRCO
andreamrau/HTSFilter
Filter replicated high-throughput transcriptome sequencing data
andreamrau/2025_BayesRCO_eQTL
Source code for reproducing the analysis and figures in Mollandin et al. (2025)
andreamrau/andrea
andreamrau/andreamrau.github.io
andreamrau/bayesR
Bayesian hierarchical model for complex trait analysis
andreamrau/BayesR_Simulations
andreamrau/blogdown_source
Repo to store blogdown site source content
andreamrau/clustree
Visualise Clusterings at Different Resolutions
andreamrau/COOLKIT
andreamrau/FirebrowseR
An R client for broads firehose pipeline, providing TCGA data sets
andreamrau/HTSCluster
Clustering High-Throughput Transcriptome Sequencing (HTS) Data with Poisson Mixture Models
andreamrau/miscR
Some miscellaneous R code
andreamrau/OpticRegen_2019
Source code for RNA-seq and ATAC-seq results presented in Dhara et al. (2019)
andreamrau/RIFplus
andreamrau/RMFRJLA_2019
Code for producing the analysis in the "Individualized multi-omic pathway deviation scores using multiple factor analysis" manuscript
andreamrau/rnaseq_tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.
andreamrau/rpkg-min
andreamrau/SARTools
Statistical Analysis of RNA-Seq Tools, modified for ATAC-seq loess normalization
andreamrau/shinyGEO
shinyGEO Homepage -http://gdancik.github.io/shinyGEO/
andreamrau/tp-rgcca
Présentations et codes reproductibles présentés lors de la journée StatOmique du 13 juin