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charon

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

dailyread

The NGI Daily Read

dds_cli

API to access Scilifelab Data Centre's delivery portal. On development

dds_web

A cloud-based system for the delivery of data from SciLifeLab Facilities to their users (e.g. research group).

flowcell_parser

Collection of python scripts to parse Illumina (demux with bcl2fastq v2.17+) output

formalisms

genologics

Python interface to the GenoLogics LIMS server via its REST API.

genologics_sql

Python interface for the Genologics Postgres database.

genomics-status

Tornado server for tracking samples at NGI Stockholm

group1day1

hicaptools

A software suite for Probe Design and Proximity Detection for targeted chromosome conformation capture applications

irma-provision

Ansible playbooks for provisioning NGI pipeline and related sw

jquery-sew

jQuery inline selector (ala Intellisense)

lims2db

lims_dashboard

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

modules

Repository to host tool-specific module files for the Nextflow DSL2 community!

multiqc_ngi

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

nf-co.re

Files for the main nf-core website >>>

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

ngisweden.se

Wordpress theme and plugins for ngisweden.se

omicsproject2015

prde

A software suite for Probe Design and Proximity Detection for targeted chromosome conformation capture applications

rnaseq

RNA sequencing analysis pipeline using STAR or HISAT2, with gene counts and quality control

scilifelab_epps

A collection of Genologics Clarity LIMS EPPs used at Scilifelab.

seqinspector

(hopefully nf-core) pipeline to inspect your sequences

spectacles

API for a clearer look at clarity