All Published Workflows
13 workflows that have been reviewed and published
Mendelian Randomization Analysis Pipeline: mr-seek
Mendelian randomization pipeline
This is the home of the pipeline, mr-seek. Its long-term goals: to perform Mendelia...
Reproducible Gene-Level Association Studies Workflow for Multi-Omic Analysis
This repository contains an entire end-to-end workflow to reproduce gene-level association studies described in:
Zhou, D., ...
Variant Annotation Workflow for Pearl Millet Using Snakemake and SnpEff
This is a little Snakemake workflow to annotate some variants from pearl millet. This task came up during a bioinformatics co...
Genetic Code Prediction and Annotation in Uncultivated Ciliates from Marine Environments
Among the ciliates, there is an unusually diverse number of genetic codes used by different species, compared with other grou...
Snakemake Workflow for shRNA-seq and CRISPR-Cas9 Genetic Screen Analysis Using edgeR
Snakemake workflow of shRNA-seq and CRISPR-Cas9 genetic screen analysis using edgeR.
Overview
Installation
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TemplateGen: Flexible BidsApp for Custom Template Generation
TemplateGen is a snakebids-based BidsApp that flexibly combines images across modalities to create custom template spaces...
AugusMake: Snakemake-Based Gene Annotation Pipeline with Augustus
Guided by a genome file, a transcriptome is de novo assembled with Trinity. It does so using RNA-Seq data provided by the...
Pipeline for the manuscript 'Accurate detection of shared genetic architecture from GWAS summary statistics in the small-sample context'
This repository contains a snakemake pipeline for the reproduction of the results in the manuscript named above. The file...
Twist Cancer hydragenetics pipeline for HG38
This pipeline is created to run on Illumina data from a custom Twist Inherited Cancer panel, designed at Clinical Genomics Up...