2021 Workshops

An Introduction to Image Analysis with CellProfiler

Microscopy and image processing methods improve every year. As the capacity to acquire and analyze images continues to grow, so too does CellProfiler, an open-source, freely-downloadable software designed for large-scale, automated phenotypic image analysis. Attendees will have a hands-on introduction to CellProfiler and ilastik, followed by case-studies on HCS and cell-type classification.

Hail as a tool for scalable genomics

Hail is an open-source library that provides accessible interfaces for exploring genomic data, with a backend that automatically scales to take advantage of large compute clusters. Hail enables those without expertise in parallel computing to flexibly, efficiently, and interactively analyze large sequencing datasets. Hail is the analytical engine behind projects such as the Genome Aggregation Database, the UK Biobank mega-GWAS, Pan UKBiobank analysis, eQTLs in GTEx, TOPMed, the Psychiatric Genomics Consortium, and the Centers for Mendelian Genomics. This workshop provides an introduction to Hail through hands-on exploration and analysis of public 1000 Genomes data. Following a brief conceptual overview, participants will be guided through a hands-on tutorial with interactive exercises. The workshop covers some of the most common use cases: general-purpose data exploration functionality; variant and sample quality control; common variant association; and rare variant burden tests. By the end, participants will be ready to begin using Hail to answer their own scientific questions.