jerome-f Goto Github PK

apricot

apricot implements submodular optimization for the purpose of selecting subsets of massive data sets to train machine learning models quickly. See the documentation page: https://apricot-select.readthedocs.io/en/latest/index.html

basenji

Sequential regulatory activity predictions with deep convolutional neural networks.

bolt

10x faster matrix and vector operations

cadd-scripts

CADD scripts release for offline scoring. For more information about CADD, please visit our website

coloc

Repo for the R package coloc

coloc_scripts

conformal-prediction

Lightweight, useful implementation of conformal prediction on real data.

csc509

For the CSC509 SFSU Course Deep Learning in Medical Imaging

dgn2vec

Pathogenic gene prediction based on network embedding

dyvider

Dynamic programming algorithms for exact linear clustering in networks.

eclipser

Enrichment of Causal Loci and Identification of Pathogenic cells in Single Cell Expression and Regulation data

enformer-pytorch

Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch

epigraphdb

Examples on using EpiGraphDB

expression_modifier_score

Repo for the Expression Modifier Score (EMS)

finemapping-insights

Code for Kanai, M. et al. Insights from complex trait fine-mapping across diverse populations. (2021)

gatmda

Graph attention networks-based framework for human microbe-disease association prediction

gecr_sumstat

gene_features

gene_lists

List of gene lists for genomic analyses.

genetic-evidence-approval

gget

🧬 gget enables efficient querying of genomic reference databases

gwaslab

A Python package for handling and visualizing GWAS summary statistics. https://cloufield.github.io/gwaslab/ https://gwaslab.com/python-gwaslab/

gwasvar2gene

hail

Scalable genomic data analysis.

lava2

ml-pitfalls

Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"

netcrs

polyfun

PolyFun (POLYgenic FUNctionally-informed fine-mapping)

pyblip

Bayesian Linear Programming for Resolution-Adaptive Signal Detection

pygwasvcf

Python library for reading GWAS summary statistics in GWAS-VCF files