All Published Workflows
5 workflows that have been reviewed and published
Kipoi-GWAS: Streamlined Variant Analysis Workflow with UK BioBank Data, Kipoi.
Kipoi-GWAS is a snakemake pipeline which
downloads UK BioBank association files
merges the annotation files with vari...
GWAS Meta-Analysis Pipeline with Snakemake and Singularity
Snakemake
Singularity
Modify the config.yaml file
Variant QC
Single-cohort association
Meta-an...
Snakemake Workflow for Autoimmune Disease Data Extraction from GWAS and PGS Catalogs
This repository contains a snakemake workflow that has been used to extract autoimmune disease-related data from the GWAS and...
Evaluating the robustness of polygenic adaptation to the choice of the GWAS cohort
This workflow is built in Snakemake. Please, download Snakemake following the instructions here: https://snakemake.readt...
A pipeline to connect GWAS Variant-to-Gene-to-Program (V2G2P) Approach
A pipeline to connect GWAS variants to genes to disease-associate gene programs. This pipeline uses snakemake and cNMF from ...
org.Hs.eg.db
Variant filtering
Spectra
universalmotif
BEDTools
BiocSklearn
Consensus
DeepTools
FiMO
FOCUS
ggseqlogo
GSEA
limma
Magma
Pandas
SCANPY
Seurat
Snakemake
cowplot
data.table
dplyr
ggplot2
ggpubr
ggrepel
gplots
Matrix
optparse
readxl
reshape2
reticulate
scales
stringi
stringr
svglite
tidyr
xlsx
yaml
anndata
cnmf
matplotlib
numpy
PyYAML
scipy
sklearn
GWAS study