iwatobu

iwatobu's Stars

• jrfonseca/gprof2dot

  Converts profiling output to a dot graph.

  Language:Python3.3k7861388

• theislab/single-cell-tutorial

  Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"

  Language:Jupyter Notebook1.4k45101467

• gao-lab/GLUE

  Graph-linked unified embedding for single-cell multi-omics data integration

  Language:Python391812258

• broadinstitute/gtex-pipeline

  GTEx & TOPMed data production and analysis pipelines

  Language:Python3482781175

• WGLab/InterVar

  A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline

  Language:Python190319893

• chr1swallace/coloc

  Repo for the R package coloc

  Language:R156415843

• boxiangliu/locuscomparer

  LocusCompareR is a R package with visualization tools for comparing two genetic association datasets.

  Language:R10762918

• sankaranlab/SCAVENGE

  SCAVENGE is a method to optimize the inference of functional and genetic associations to specific cells at single-cell resolution.

  Language:R8041134

• dpeerlab/PhenoGraph

  Subpopulation detection in high-dimensional single-cell data

  Language:Python6661425

• cnfoley/hyprcoloc

  R package for performing high dimensional multi-trait colocalization analyses using GWAS summary data

  Language:R4521311

• opentargets/genetics-sumstat-harmoniser

  Harmonise GWAS summary statistics against a reference VCF

  Language:Python40806

• mguindani/Lectures

  This repository contains slides from some of the classes I have taught in my career. The repository will be updated from time to time. If you are interested in the .tex files and other material (e.g., lab material) for your own course preparation, feel free to reach out directly to me.

  33109

• mathyslab7/ROSMAP_snRNAseq_PFC

  Language:R27108

• jrs95/gassocplot

  Regional association plots

  Language:R25238

• jrs95/gassocplot2

  Regional association plots

  Language:R25155

• opentargets/genetics-finemapping

  Fine-mapping pipeline for Open Targets Genetics

  Language:Python25708

• MRC-Epid/pGWAS_discovery

  Code repository for Pietzner M, Wheeler E, et al. 2021 "Mapping the proteo-genomic convergence of human diseases"

  Language:R23127

• chembl/tractability_pipeline_v2

  Pipeline for assessing the tractability of potential targets (starting from Gene IDs)

  Language:Python20538

• globalbiobankmeta/multi-ancestry-pwmr

  Code for GBMI trans-ancestry proteome Mendelian randomization satellite paper

  Language:R17216

• konumat/Trans-Phar

  GWAS-TWAS (Transcriptome-wide association study)-Pharmacological library integration pipeline

  Language:R17176

• opentargets/genetics-colocalisation

  Colocalisation pipeline for Open Targets Genetics

  Language:Python16608

• Jeremy37/AD_finemap

  Code supporting analyses in paper on fine-mapping AD loci

  Language:R151213

• hakyimlab/phenomexcan

  PhenomeXcan: mapping the genome to the phenome through the transcriptome

  Language:Jupyter Notebook11511

• crisprVerse/Tutorials

  Tutorials for the crisprVerse

  Language:TeX10160

• NightingaleHealth/ukb-nightingale-biomarker-atlas

  Data analysis scripts for "Atlas of plasma NMR biomarkers for health and disease in 118,461 individuals from the UK Biobank".

  Language:R10003

• astrazeneca-cgr-publications/mantis-ml-release-2.0

  Mantis-ML 2.0

  Language:Python9311

• goldfinchbio/emr-hail

  A project to bootstrap EMR clusters with Hail installed

  Language:Shell8707

• bloodcellgwas/manuscript_code

  Manuscript code for our paper: bit.ly/bloodcellgwas

  Language:R4304

• macarthur-lab/gnomad_lrrk2

  Language:R32201

• aidanmacnamara/netChoose

  Language:HTML10