Hackseq Projects 2016

• Project 1 Implement an evaluation framework for software that manipulates HGVS-formatted variants
• Project 2 Design a tool to optimize the parameters of any command line tool
• Project 4 Pseudo-WGS variant calling for common cell types aggregating ChIP-seq, RNA-seq and DHS from ENCODE and Roadmap Epigenomics data
• Project 5 A framework to evaluate profiles from DNA-binding site collections represented in peak sequences from ChIP-Seq assays
• Project 6 Inferring sex chromosome and autosomal ploidy in NGS data
• Project 7 Visualization of single cell RNA-seq data from tens of thousands of cells in real time
• Project 8 Explore the use of 10x Genomics' Linked-Reads to unlock currently inaccessible parts of the genome
• Project 9 Selection of tag SNPs for an African SNP array by LD and haplotype based methods
• Project 10 Develop an open-source, automated pipeline to close bacterial genomes with long read technologies