Genomic Medicine Sweden
genomic-medicine-sweden
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An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.
A nextflow pipeline for analysing expression and splicing in RNA seq data from rare disease patient
Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.
nf-core/taxprofiler post-processing; verification of classification results; consensus maps
A nextflow pipeline with a GMS touch for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics).
Repositories
44An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
Pipeline for Solid tumours
Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.
NGPIris 👁 (intelligence and repository interface software) is a light-weight tool for interacting with a Boto3 backed Hitachi Content Platform
No description provided.
Design and filter files used by the pipeline
nf-core/taxprofiler post-processing; verification of classification results; consensus maps
A nextflow pipeline for analysing expression and splicing in RNA seq data from rare disease patient
A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.
No description provided.
Pre-commit hook to auto-generate parameters documentation for non-nf-core pipelines.
No description provided.
No description provided.
Call and score variants from WGS/WES of rare disease patients.
An nf-core modules repository hosting Nextflow DSL2 modules for the genomic-medicine-sweden organization.
A pipeline to download the reference files needed to run nf-core/raredisease.
HIV drug resistance test
A nextflow pipeline with a GMS touch for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics).
Assembly and intrahost/low-frequency variant calling for viral samples
Test data to be used for automated testing with the nf-core pipelines
No description provided.
No description provided.
No description provided.
Repository to host tool-specific module files for the Nextflow DSL2 community!
Visualisation of metagenomic analysis results
Pharmacogenomics pipeline
Taxonomic profiling of shotgun metagenomic data
No description provided.
Aggregate results from bioinformatics analyses across many samples into a single report.
Small scripts and other similar NGP solutions of sensitive nature