Name: Andrea Komljenovic, Dr.
Type: User
Company: @sib-swiss @BgeeDB
Bio: Ph.D. in Bioinformatics / Systems Biology - Zürich/Lausanne. Cornell.
#1 in Bioinformatics.
Single-cell, multi-omics.
📍Vienna
Twitter: antifreezeprot
Location: ETH/University of Zurich, Switzerland
Andrea Komljenovic, Dr.'s Projects
Convolutional neural network analysis for predicting DNA sequence activity.
an R package for retrieval of curated expression datasets and for gene list expression localization enrichment tests, Komljenovic et al. f1000Research
Advanced R / Bioconductor training material
Pipelines for RNAseq, Chipseq, ...
ENCODE ChIP-seq pipeline
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
Code to analyze cross-species functional modules link proteostasis to human normal aging, Komljenovic et al. Plos Comp Bio
Repository for the Epigenomics Tutorial hold at ISMB 2017 in Prague
Feather: fast, interoperable binary data frame storage for Python, R, and more powered by Apache Arrow
Spatial omics analysis toolbox
Collection of the scripts for the integrative sequencing visualizations
resources when working with GWAS summary stats
Software Pipeline for Integrative Genetic Association Analysis: Probabilistic Assessment of Enrichment and Colocalization
Code to analyze human samples
code to analyze RNA-seq and microarrays, for lifespan paper
R package implementation of Milo for testing for differential abundance in KNN graphs
Benchmark datasets, data loaders, and evaluators for graph machine learning
Visual self-service analytics platform for big omics data.
Code to analyze Epigenetic silencing of monoallelically methylated miRNA loci in precancerous colorectal lesions.
Template for writing a PhD thesis in Markdown
The "Python Machine Learning" book code repository and info resource
collection of the R scripts for the clinical datasets
Make-like declarative workflows in R
an R package; a method for multivariate QC for large-scale single-cell RNA-seq datasets.
Source files of materials for practicals of sequence a genome, spring 2016.
Book on Spatial Omics Analysis with Bioconductor
An open and universal framework for processing spatial omics data
docker pipelines