CD2H gitForager

Ino de Bruijn

Login: inodb

Company: null

Location: Brooklyn, NY

Bio: null

Blog: http://ino.pm

Member of

Repositories

2013-metagenomics-workshop-gbg: Metagenomic Workshop G�teborg
2014-05-mdopson-viral: null
2014-06-favorite-microbe: Presentation Flavobacterium psychrophilum
2014-06-lims-developers-workshop: ETT LIMS developers workshop
2014-08-work-seminar: Overview of previous work
2014-09-haspeborg-moose-project: Clustering metagenomic assemblies with CONCOCT for moose project
2014-11-masmvali-presentation: Presentation at metagenomics hackathon NI Cambridge
2014-3-lims-presentation: Presentation of LIMS for Ettema Lab
2014-5-metagenomics-workshop: Metagenomics Workshop 2014-5-21 to 2014-5-23 at SciLifeLab, Stockholm
2014hack: Hackathon @ NI
2015-04-13-verse-virusfinder-presentation: null
assembly-workshop: Assembly workshop at SciLifeLab
bioconda-recipes: Conda recipes for the bioconda channel.
bioinfo-outreach: Presentations, posters and workshop site for my homepage
biorhino-tools: A collection of simple bioinformatic scripts
blog-inopm: Blog for ino.pm
bsc-thesis: BSc thesis - CollaMusica - Music composition in a distributed collaborative environment
cancerhotspots: Cancer Hotspots
cbioportal: null
cbioportal-buildpack: null
cbioportal-frontend: null
cbioportal-frontend-test: cBioPortal Frontend React Refactor
cbioportal-octane-overlay: The OCTANE branding for cBioPortal, as a war overlay
clinical-timeline: Visualization clinical data in time line.
CONCOCT: Clustering cONtigs with COverage and ComposiTion
CONCOCT-test-data: A test dataset for CONCOCT
conda-buildpack: Buildpack for Conda.
d3-timeline: Simple JS timeline plugin for d3
datahub: A centralized location for storing curated data ready for inclusion in cBioPortal.
devbox: null
devcenter-embedded-tomcat: null
dicom-flask-uploader: DICOM Image upload website using Flask
django-import-export: Django application and library for importing and exporting data with admin integration.
dotfiles: Dotfiles I use. Most of it is ripped from other people. Unfortunately I forgot the original source in some cases. Notify me if you want credits.
envgen.github.io: The Environmental Genomics Home Page
ETTLIMS: A Single Cell Genomics Lab Information Management System developed for the Ettema Lab.
facs: Fast and Accurate Classification of Sequences using Bloom filters
forgitful: null
gefes: Genome Extraction From Environmental Sequencing
genome-nexus: REST API for Annotation and Interpretation of Genetic Variants in Cancer
genome-nexus-annotation-pipeline: Library and tool for annotating MAF files using Genome Nexus Webserver API
genome-nexus-importer: Import data into MongoDB for use by https://github.com/genome-nexus/genome-nexus/
gnu-make-job-scheduler: A library for GNU make to schedule rules as jobs with qsub or sbatch
helm: The Kubernetes Package Manager
homebrew-core: ? Default formulae for the missing package manager for macOS
img-compare: null
khmer: in-memory k-mer counting
kops: Kubernetes Operations (kops) - Production Grade K8s Installation, Upgrades, and Management
masmvali: MASMVALI (Metagenomic ASseMbly VALIdation) is an assembly validator for metagenomics with known reference genomes.
masmvali-publication: MASMVALI Publication
masmvaliweb: Web service for MASMVALI (Metagenomic Assembly VALIdation)
metassemble: Scripts to run several metagenomics assembly programs
modules: null
msc-thesis: null
NGSTools: NGSTools
notebooks: Ipython notebooks
oncokb: null
pathway-mapper: An interactive and collaborative graphical curation tool for cancer pathways
pdx-data-hub: null
picard: A set of tools (in Java) for working with next generation sequencing data in the BAM (http://samtools.github.io/hts-specs) format.
ProBin: A program for binning metagenomic contigs to taxonomic rank, with possibility to use correlation between multiple samples.
prometheus-operator: Prometheus Operator creates/configures/manages Prometheus clusters atop Kubernetes
pydicom: Read, modify and write DICOM files with python code
python-selenium: null
react-tooltip-test: Test tooltip for cBioPortal
revmut: REVertant MUTation Find & Verify
scripts: null
session-service: null
slurm: SLURM: A Highly Scalable Resource Manager
snakemake-parallel-bwa: A Snakefile to parallelize bwa.
snakemake-uppmax-demo: Demonstrates the use of snakemake compared to GNU make on Uppmax with a simple example
snakemake-workflows: An experimental repo for common snakemake rules and workflows
spoetify: Turns a poem into Spotify tracks. Built with python and Flask.
sufam: Super sensitive mutation validator, uses sam/bam and vcf
vcf2maf: Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms

Commits To

Repository	Most Recent Commit	# Commits
jiahuang/d3-timeline	2017-04-12 21:05:31.0	8
EnvGen/envgen.github.io	2014-09-15 12:05:35.0	1
genome-nexus/genome-nexus	2018-03-21 19:30:14.0	72
iVis-at-Bilkent/pathway-mapper	2018-01-25 22:42:46.0	2

This work is supported by the National Institutes of Health's National Center for Advancing Translational Sciences, Grant Number U24TR002306. This work is solely the responsibility of the creators and does not necessarily represent the official views of the National Institutes of Health.