genomic-medicine-linkoping Goto Github PK
Name: Genomic Medicine Linköping
Type: Organization
Location: Sweden
Blog: https://liu.se/en/article/bioinformatik-vid-core-facility
Name: Genomic Medicine Linköping
Type: Organization
Location: Sweden
Blog: https://liu.se/en/article/bioinformatik-vid-core-facility
Conda recipes for the bioconda channel.
Collection of rules used to call structural variants
Sentieon DNAseq basic pipeline
A nextflow pipeline with a GMS touch for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics).
GMS Metagenomics post-classification
Snakemake module containing processing steps that should be performed during sequence alignment.
Snakemake module containing processing steps that should be performed before sequence alignment.
Collection of rules performing QC and generating reports.
Collection of rules used to call snv and small indels.
Epitypification pipeline for clinical NGS data. Written in NextFlow, Python & Bash.
QC and trimming of fastq reads
scRNA-seq
Repository to host tool-specific module files for the Nextflow DSL2 community!
Snakemake module containing different analyses provided by parabricks.
Pharmacogenomics pipeline
Anlysis of pharmacogenomic targets from Genomic Medicine Swedens heamatology panel.
Pipeline based on hydra modules for in-house validation of qiagen's qiaseq bioinformatics pipeline
Call and score variants from WGS/WES of rare disease patients.
STAR pipeline
This is the development home of the Snakemake wrapper repository, see
RNA-seq STAR Pipeline
Highly parallelised multi-taxonomic profiling of shotgun metagenomic data
Test data to be used for automated testing with the nf-core pipelines
Sentieon TNscope basic pipeline
Pipeline for Solid tumours
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