kern3020
I'm a software engineer interested in biology and languages (studying Portuguese these days).
Menlo Park, CA
Pinned Repositories
alignment-and-variant-calling-tutorial
basic walk-throughs for alignment and variant calling from NGS sequencing data
AUT
trivial repository to allow me to test out various CI tools
BBL
Working repo for Berkeley Biolabs Bioinformatics Series 2014
bcbio-nextgen
Best-practice pipelines for fully automated high throughput sequencing analysis
bcbio-nextgen-vm
Run bcbio-nextgen genomic sequencing analyses using isolated containers and virtual machines
biopython
Official git repository for Biopython (converted from CVS)
blasr
BLASR: The PacBio® long read aligner
chanjo
Chanjo provides a better way to handle sequence coverage data in clinical sequencing.
cuttlefish
A repository in support the Biocurious's Cuttlefish project
CuttlefishWranglin
Studying the RNA Editing capabilities of Sepia bandensis (dwarf cuttlefish)
kern3020's Repositories
kern3020/cuttlefish
A repository in support the Biocurious's Cuttlefish project
kern3020/CuttlefishWranglin
Studying the RNA Editing capabilities of Sepia bandensis (dwarf cuttlefish)
kern3020/alignment-and-variant-calling-tutorial
basic walk-throughs for alignment and variant calling from NGS sequencing data
kern3020/AUT
trivial repository to allow me to test out various CI tools
kern3020/BBL
Working repo for Berkeley Biolabs Bioinformatics Series 2014
kern3020/bcbio-nextgen
Best-practice pipelines for fully automated high throughput sequencing analysis
kern3020/bcbio-nextgen-vm
Run bcbio-nextgen genomic sequencing analyses using isolated containers and virtual machines
kern3020/biopython
Official git repository for Biopython (converted from CVS)
kern3020/blasr
BLASR: The PacBio® long read aligner
kern3020/chanjo
Chanjo provides a better way to handle sequence coverage data in clinical sequencing.
kern3020/cloudbiolinux
CloudBioLinux: configure virtual (or real) machines with tools for biological analyses
kern3020/common-workflow-language
Repository for CWL Specfications
kern3020/curio
curio: a rare, unusual, or intriguing object. Let's explore SNPs
kern3020/django-extensions
This is a repository for collecting global custom management extensions for the Django Framework.
kern3020/edx-ora
edX ORA (Open Response Assessor) allows for the peer, instructor, and AI assessment of problems on the edX platform.
kern3020/elasticluster
kern3020/harbinger
kern3020/hgvs
Python library to parse, format, validate, normalize, and map sequence variants
kern3020/import_test
what's a good way to import an existing git repo
kern3020/incubator
incubator for useful scripts
kern3020/lab-onboarding
kern3020/labs
Scripts for the PH525x: Data Analysis for Genomics
kern3020/natcap
Using the repo to develop some contributions to the Natural Capital project.
kern3020/opportunity
a web application dedicated to helping people find jobs
kern3020/poretools
a toolkit for working with Oxford nanopore data
kern3020/samtools
Tools (written in C using htslib) for manipulating next-generation sequencing data
kern3020/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
kern3020/stepic_moor
investigating open research problems posed by Stepic.
kern3020/tibanna
Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.
kern3020/xqueue
XQueue defines an interface for the LMS to communicate with external grader services.