Snakemake—a scalable bioinformatics workflow engine
Abstract Summary: Snakemake is a workflow engine that provides a readable Python-based workflow definition language and a powerful execution environment that scales from single-...
Publications
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96 publications
Safeguarding human health in the Anthropocene epoch: report of The Rockefeller Foundation–Lancet Commission on planetary health
Earth's natural systems represent a growing threat to human health. And yet, global health has mainly improved as these changes have gathered pace. What is the explanation? As a...
Community-Based Participatory Research for Health
If Thomas Kuhn (1962) is correct, a field of inquiry develops in stages. Some members of a field of inquiry recognize anomalies in the foundational beliefs and seek better expla...
Global and regional effects of potentially modifiable risk factors associated with acute stroke in 32 countries (INTERSTROKE): a case-control study
Canadian Institutes of Health Research, Heart and Stroke Foundation of Canada, Canadian Stroke Network, Health Research Board Ireland, Swedish Research Council, Swedish Heart an...
Age and the Explanation of Crime
One of the few facts agreed on in criminology is the age distribution of crime. This fact has been used to criticize social theories of crime causation, to provide the foundatio...
Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing
Most patients with acute myeloid leukaemia (AML) die from progressive disease after relapse, which is associated with clonal evolution at the cytogenetic level. To determine the...
The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants
FASTQ has emerged as a common file format for sharing sequencing read data combining both the sequence and an associated per base quality score, despite lacking any formal defin...
Overdiagnosis in Cancer
This article summarizes the phenomenon of cancer overdiagnosis-the diagnosis of a "cancer" that would otherwise not go on to cause symptoms or death. We describe the two prerequ...
Structure and Interpretation of Computer Programs
"The Structure and Interpretation of Computer Programs" is the entry-level subject in Computer Science at the Massachusetts Institute of Technology. It is required of all studen...
Demographic and Epidemiologic Drivers of Global Cardiovascular Mortality
The aging and growth of the population resulted in an increase in global cardiovascular deaths between 1990 and 2013, despite a decrease in age-specific death rates in most regi...