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amp_ad_structuralvariation

Repository for the AMP-AD structural variation manuscript

ar_rotation

cataloguer

Easy-to-use R wrappers for the eQTL Catalogue's API (both with tabix and the REST API).

covid19_phewas

Genetic signatures COVID-19 susceptibility

deepsea

R analyses and plots of DeepSEA (http://deepsea.princeton.edu) output, applied to Alzheimer's disease data.

devoptera

⏩ Practical tools for R developers :rewind: :wrench::bat: :hammer::bat: :toolbox::bat:

dey_deeplearning

Searchable, pre-computed, variant-level predictions from several deep learning models.

downloadr

echoverse module: Single- and multi-threaded downloading functions.

downstream-qtl

set of scripts and pipelines to work with QTL results

echoannot

echoverse module: Annotate fine-mapping results

echoconda

echoverse module: conda environment handling

echodata

echoverse module: Example data.

echodeps

echoverse module: Create package dependency graphs

echofinemap

echoverse module: Statistical and functional fine-mapping functions.

echogithub

echoverse module: Extract data and metadata from GitHub

echold

echoverse module: LD downloading and processing

echolocator

Automated statistical and functional fine-mapping pipeline with extensive API access to datasets.

echoplot

echoverse module: Locus plot creation for fine-mapping and colocalization studies.

echotabix

echoverse module: Tabix indexing and querying.

echoversetemplate

Self-updating template for creating echoverse R packages.

editing-pipeline

A set of snakemake pipelines for doing RNA editing

ewce-pipeline

A set of scripts for running Expression-Weighted Cell-type Estimation (EWCE)

fastqtl

Fork of FastQTL for SVs (to run on Minerva)

fine_mapping

Fine mapping of genes associated with Parkinson's Disease using a variety of methods

fine_mapping_shiny

Shiny app for plotting and sharing fine-mapping results from echolocatoR

genotype_qc_pipeline_2.0

gglocuszoom

Create LocusZoom-style plots in R.

gtex-pipeline

GTEx Consortium data production and analysis pipelines

gtexv6prarevariation

Repository to reproduce analyses from the GTEx V6P Rare Variation Manuscript

isomiga

The isoform-centric microglia genomic atlas.