UC San Diego Center for Computational Biology & Bioinformatics

UC San Diego Center for Computational Biology & Bioinformatics's repositories

visJS2jupyter

visJS2jupyter is a tool to bring the interactivity of networks created with vis.js into jupyter notebook cells

Language:Jupyter NotebookMIT78 21 23

VAPr

VAPr: A Python package for NoSQL variant data storage, annotation and prioritization

Language:PythonMIT34 13 24

NetColoc

development of network co-localization tool

Language:Jupyter NotebookMIT13 4 8

C-VIEW

This software implements a high-throughput data processing pipeline to identify and charaterize SARS-CoV-2 variant sequences in specimens from COVID-19 positive hosts or environments.

Language:PythonMIT900

gsia

Gene Set Information Analysis

Language:R7 4 4

jupyter-pathway

Canonical pathway visualization and analysis

Language:Jupyter NotebookMIT500

This repository contains code for the dual-CRISPR screen analysis pipeline developed to analyze results from the dual-CRISPR screening system set up by the labs of Dr. Prashant Mali and Dr. Trey Ideker. The software is developed by Amanda Birmingham and Roman Sasik of the Center for Computational Biology and Bioinformatics at the University of California, San Diego.

Language:PythonMIT400

qiimp

Web application to collect metadata specifications from an experimenter and produce metadata input files with appropriate constraints

Language:Python3 3 174

ARMORsmith

ARMORsmith is a suite of scripts to assemble the data from the UC San Diego Aggregated Registry for Molecular Oncology Research (ARMOR). Refer to the wiki for more details

Language:RMIT200