Nucleus: Python and C++ code for reading and writing genomics data.
...ode designed to make it easy to read, write and analyze data in common genomics file formats like SAM and VCF...egration with the TensorFlow machine learning framework, as anywhere a genomics file is consumed or produced,...1553 days ago
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The Global Alliance for Genomics and Health (GA4GH)
The Global Alliance for Genomics and Health (GA4GH) is a policy-framing and technical standards-setting organization, seeking to enable responsible genomic data sharing within a hum...1547 days ago
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JCVI:Python utility libraries on genome assembly, annotation and comparative genomics
Collection of Python libraries to parse bioinformatics files, or perform computation related to assembly, annotation, and comparative genomics. https://github.com/tanghaibao/jcvi More at https://github.com/tanghaibao/jcvi/wiki1509 days ago
Phytozome v12.1: plant science community hub for accessing palnts genomic data
Phytozome, the Plant Comparative Genomics portal of the Department of Energy's Joint Genome Institute, provid...nd analyses, Phytozome facilitates accurate and insightful comparative genomics studies.1509 days ago
CSA: A high-throughput chromosome-scale assembly pipeline for vertebrate genomes
The pipeline can use information from scaffolded assemblies (for example from HiC or 10X Genomics), or even from diverged (~65-100 Mya) reference genomes for ordering the contigs and t...1151 days ago
wgd—simple command line tools for the analysis of ancient whole-genome duplications
...y used KS and colinearity analysis workflows together with tools for modeling and visualization, rendering these analyses accessible to genomics researchers in a convenient m...1381 days ago
PyParanoid: a pipeline for rapid identification of homologous gene families in a set of genomes
...gene families in a set of genomes - a central task of any comparative genomics analysis. The "gold standard"...ematic, as the modern deluge of sequencing data means that comparative genomics analyses could be performed o...1360 days ago