nationalgenomicsinfrastructure Goto Github PK

aliceflow

NextFlow framework to streamline the Genalice variant call pipeline

cava

Count-based analysis of variants in long amplicons

charon

Database for IGN projects and samples, with RESTful interface. Built on top of Tornado and CouchDB.

dailyread

The NGI Daily Read

htt-repeat-analysis

icing

An attempt to make HLA typing from OxfordNanopore reads (MinION platform)

irma-provision

Ansible playbooks for provisioning NGI pipeline and related sw

lims_dashboard

loop-genomics-fusions

mdx_outline

Python-Markdown extension to wrap the document logical sections (as implied by h1-h6 headings)

miarka-provision

Ansible playbooks for provisioning NGI cluster Miarka

mosquitorobots

Protocols and plates with plate definitions for SPT Mosquito robots

multiqc_ngi

MultiQC plugin for the National Genomics Infrastructure in Stockholm, Sweden.

ngi-as-tech_note-2024

ngi_dashboards

SciLifeLab NGI Dashboard Code

ngi_pipeline

Code driving the production pipeline at SciLifeLab

ngi_reports

Code to generate reports for use by the NGI in SciLifeLab

ngi_visualizations

Next-Gen Sequencing Visualisation Scripts.

ngipubs

Web tool to find and annotate NGI publications

ngisweden.se

Wordpress theme and plugins for https://ngisweden.se

orderportal

A portal for orders (requests, project applications, etc) to a facility from its users.

piper

A genomics pipeline build on top of the GATK Queue framework

plates

NGI plate database

spectacles

API for a clearer look at clarity

tower-showcase

Infrastructure as code implementation of the seqeralabs/showcase Workspace in Tower Cloud

umi-injector

umi-injector integrates UMI sequences from a separate FastQ file into the read headers of a single or paired FastQ.

userman

Simple user account handling system for use with web services. Built on top of Tornado and CouchDb.

vcf_comparisons

Compare two VCF files and generate individuals stats and comparisons for snp and indels