Pinned Repositories
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.
jerome-f's Repositories
jerome-f/basenji
Sequential regulatory activity predictions with deep convolutional neural networks.
jerome-f/CADD-scripts
CADD scripts release for offline scoring. For more information about CADD, please visit our website
jerome-f/coloc
Repo for the R package coloc
jerome-f/coloc_scripts
jerome-f/conformal-prediction
Lightweight, useful implementation of conformal prediction on real data.
jerome-f/CSC509
For the CSC509 SFSU Course Deep Learning in Medical Imaging
jerome-f/dyvider
Dynamic programming algorithms for exact linear clustering in networks.
jerome-f/ECLIPSER
Enrichment of Causal Loci and Identification of Pathogenic cells in Single Cell Expression and Regulation data
jerome-f/enformer-pytorch
Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch
jerome-f/GeCr_Sumstat
jerome-f/gget
š§¬ gget enables efficient querying of genomic reference databases
jerome-f/gwaslab
A Python package for handling and visualizing GWAS summary statistics. https://cloufield.github.io/gwaslab/ https://gwaslab.com/python-gwaslab/
jerome-f/GWASvar2gene
jerome-f/hail
Scalable genomic data analysis.
jerome-f/LAVA2
jerome-f/netCRS
jerome-f/polyfun
PolyFun (POLYgenic FUNctionally-informed fine-mapping)
jerome-f/pyblip
Bayesian Linear Programming for Resolution-Adaptive Signal Detection
jerome-f/quickLD
quickLD, a large-scale, long-range Linkage Disequilibrium analysis tool utilizing parallel CPU, GPU or heterogeneous computing.
jerome-f/SCAVENGE
SCAVENGE is a method to optimize the inference of functional and genetic associations to specific cells at single-cell resolution.
jerome-f/scJoint
jerome-f/slalom
SLALOM (suspicious loci analysis of meta-analysis summary statistics)
jerome-f/SparsePro
an efficient genome-wide fine-mapping method integrating summary statistics and functional annotations
jerome-f/SumStats
Summary statistics with HDF5
jerome-f/susieR
R package for "sum of single effects" regression.
jerome-f/tabular-benchmark
jerome-f/ukbb_common
jerome-f/ukbb_pan_ancestry
Analyses conducting GWAS across the UKBB diverse superpopulations
jerome-f/xgboost-mod
Scalable, Portable and Distributed Gradient Boosting (GBDT, GBRT or GBM) Library, for Python, R, Java, Scala, C++ and more. Runs on single machine, Hadoop, Spark, Dask, Flink and DataFlow
jerome-f/zlib-m
A massively spiffy yet delicately unobtrusive compression library.