sclvm

scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources, thereby allowing for the correction of confounding sources of variation.

scrambler

Interpretation by Deep Generative Masking for Biological Sequences

scripts_sagmb

R scripts for Jumentier et al. 2021

scrna-seq_notes

A list of scRNA-seq analysis tools

selectiontools

Pipeline to take VCF through to Selection Analysis.

selene

a framework for training sequence-level deep learning networks

sgdcs

A synthetic tool to study species genetic correlations (SGDCs), including α-SGDCs and β-SGDCs. The package includes many functions that can study the effects of enviromnetal factors on SGDCs.

shap

A game theoretic approach to explain the output of any machine learning model.

shapley-values-h2o-example

Shapley Values with H2O AutoML Example (ML Interpretability)

sift4g_create_genomic_db

Create genomic databases with SIFT predictions. Input is an organism's genomic DNA (.fa) file and the gene annotation file (.gtf). Output will be a database that can be used with SIFT4G_Annotator.jar to annotate VCF files.

single-cell-bioinformatics

Course material in notebook format for learning about single cell bioinformatics methods

single-cell-training

Website hosted at https://sib-swiss.github.io/single-cell-training/latest/

spaceflow

spektral

Graph Neural Networks with Keras and Tensorflow 2.

ss_performance

SS_performance

stabilized-hide-mk

Stabilized Hierarchical DNN with multiple knockoffs

subsage

Inferring feature importance in high-dimensional data

tabnet

PyTorch implementation of TabNet paper : https://arxiv.org/pdf/1908.07442.pdf

tdc

Therapeutics Data Commons: Machine Learning Datasets and Tasks for Drug Discovery and Development

uk_biobank_gwas

Overview of the data QC, code, and GWAS summary output from the 2017 UK Biobank data release

ukbb_ldsc_r2

genetic correlation between phenotypes in the UK biobank

variantscan

VariantScan: a Machine Leaning Tool for Variant Association Testing

xgbfi

XGBoost Feature Interactions & Importance

xinghuq.github.io

zmirror

The next-gen reverse proxy for full site mirroring