Pinned Repositories
bioconductor-galaxy-cancer-genomics-toolbox
cgcloud
Image and VM management for Jenkins, Spark and Mesos clusters in EC2
cgpBigWig
BigWig manpulation tools using libBigWig and htslib
cgpCaVEManWrapper
Reference implementation of CGP workflow for CaVEMan SNV analysis
compose
🎺 Open source music compositions.
tiagle
🌳Jupyter notebook with a Google Interview preparation.
alie
🚀 register new bash aliases and functions with ease.
cookiecutter-toil
🍪 Cookiecutter template for Class Based Toil pipelines.
toil_container
:whale: Toil + Docker and Singularity.
jsmedmar's Repositories
jsmedmar/compose
🎺 Open source music compositions.
jsmedmar/tiagle
🌳Jupyter notebook with a Google Interview preparation.
jsmedmar/cgcloud
Image and VM management for Jenkins, Spark and Mesos clusters in EC2
jsmedmar/cgpBigWig
BigWig manpulation tools using libBigWig and htslib
jsmedmar/cgpCaVEManWrapper
Reference implementation of CGP workflow for CaVEMan SNV analysis
jsmedmar/cgpPindel
Cancer Genome Project Insertion/Deletion detection pipeline based around Pindel
jsmedmar/cgpVcf
Vcf file utilities
jsmedmar/config
jsmedmar/django-rest-framework-bulk
Django REST Framework bulk CRUD view mixins
jsmedmar/dockstore-cgpwgs
Dockstore implementation of CGP core WGS analysis
jsmedmar/dockstore-cgpwxs
Dockstore implementation of CGP core WXS analysis
jsmedmar/docsify
🃏 A magical documentation site generator.
jsmedmar/ecan_app
My first django app developed during a GRA at NYU in 2015. Tracks garbage imagery and tries to classify new objects using Random Forests.
jsmedmar/ecan_rpi
One of my first python projects. Raspberry Pi code to control a stepper motor, take 360 degrees images of garbage and upload them to a Django application.
jsmedmar/github-issue-templates
:symbols: A collection of GitHub issue and pull request templates
jsmedmar/muskcloud
jsmedmar/PCAP-core
NGS reference implementations and helper code for mapping (originally part of ICGC-TCGA-PanCancer)
jsmedmar/pypandoc
Thin wrapper for "pandoc" (MIT)
jsmedmar/pytest-cookies
🍪 The pytest plugin for your Cookiecutters
jsmedmar/pytest-env
pytest plugin used to set environment variables
jsmedmar/python-base
jsmedmar/ReDoc
📘 OpenAPI/Swagger-generated API Reference Documentation
jsmedmar/relojito
jsmedmar/sphinx
Main repository for the Sphinx documentation builder
jsmedmar/STAR
RNA-seq aligner
jsmedmar/sublime_settings
My set of .sublime-settings configuration files. To use Sublime Text with my settings, replace the User directory with this repo.
jsmedmar/THetA
Tumor Heterogeneity Analysis (THetA) and THetA2 are algorithms that estimate the tumor purity and clonal/subclonal copy number aberrations directly from high-throughput DNA sequencing data. This repository includes the updated algorithm, called THetA2.
jsmedmar/toil
A scalable, efficient, cross-platform and easy-to-use workflow engine in pure Python
jsmedmar/urban_sensing
🏡 Counting moving objects with Raspberry Pi.
jsmedmar/word_cloud
A little word cloud generator in Python