tweep
Working on large scale data processing within the bioinformatics domain. Data makes my life go round, and my code helps making it manageable.
Genentech, EMBL, Sanger, Max Planck Institute. United States
Pinned Repositories
amazon-ecs-developer-guide
The open source version of the Amazon ECS developer guide. You can submit feedback & requests for changes by submitting issues in this repo or by making proposed changes & submitting a pull request.
Arduino
An Arduino project to emulate the whack-a-mole game using vibration sensors, LEDs, sound and poofers.
Arduino_LCD_Menu
This library creates menu systems primarily useful for 16x2 or 16x4 LCD displays.
aws-cloudformation-templates
A collection of useful CloudFormation templates
ensembl-hive-slurm
Slurm Meadow for Ensembl Hive
ensembl-variation
The Ensembl Variation Perl API and SQL schema
index-tsv-files-with-solr-DIH-one-doc-per-line
Description / example how to index a bunch of CSV files with the Solr DataImportHandler and generate one solr document per CSV line
ledstrip-artproject
pixLite16_and_LedLabs_configuration
Notes on how to configure LEDlabs and a PixLite16 LED controller from Advatek http://www.advateklights.com
tweep's Repositories
tweep/ensembl-hive-slurm
Slurm Meadow for Ensembl Hive
tweep/index-tsv-files-with-solr-DIH-one-doc-per-line
Description / example how to index a bunch of CSV files with the Solr DataImportHandler and generate one solr document per CSV line
tweep/amazon-ecs-developer-guide
The open source version of the Amazon ECS developer guide. You can submit feedback & requests for changes by submitting issues in this repo or by making proposed changes & submitting a pull request.
tweep/aws-cloudformation-templates
A collection of useful CloudFormation templates
tweep/aws-genomics-workflows
Genomics Workflows on AWS
tweep/cbioportal
cBioPortal for Cancer Genomics
tweep/cfn-quiz
tweep/cftemplates
AWS CloudFormation Templates
tweep/cmonitor
A Docker/LXC, database-free, lightweight container performance monitoring solution, perfect for ephemeral containers (e.g. containers used for DevOps automatic testing). Can also be used with InfluxDB and Grafana.
tweep/cromwell
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
tweep/cromwell-ubuntu18-devbox
Development env for Cromwell WDL workflows
tweep/data-modal
A data resource browser and selector based on DataTables. Used by igv applications for selecting files from ENCODE and other data resources.
tweep/docker-confd-aws-variable-set
tweep/docker-readthedocs
:whale: ReadTheDocs (RTD, read the docs) in docker
tweep/dotfiles
Backup of my dotfiles
tweep/ehive-base-ubuntu-18-extended
image to extend ehive-base-ubuntu-18
tweep/ehive-sentieon-feb-basic
Basic docker file for Sentieon FEB ( only installs required programs )
tweep/ensembl-hive
EnsEMBL Hive - a system for creating and running pipelines on a distributed compute resource
tweep/guiHive
Graphical interface for the eHive workflow manager
tweep/igv-webapp
IGV Web App
tweep/igv-widgets
UI widgets for igvteam applications
tweep/index-xml-files-from-clinicaltrials-gov-with-solr-DIH
Quick example how to index the XML files from clinicalTrials.gov with SOLR
tweep/nextflow-wf-example
Example workflow to run
tweep/nf-tower
Nextflow Tower system
tweep/s5cmd
Parallel S3 and local filesystem execution tool.
tweep/salmon-nf
Salmon Nextflow toy pipeline
tweep/seff-rest
Mini REST to get some job data from Slurm / seff
tweep/single_cell_portal_core
Rails/Docker application for the Regev lab's single cell RNA-seq data portal
tweep/t2dream-portal
The Diabetes Epigenome Atlas project collects and provides data on the human genome and epigenome to facilitate genetic studies of type 2 diabetes and its complications. The resource is based on software developed by the ENCODE DCC at Stanford University.
tweep/vcf.iobio
link vcf.iobio with dockerhub