R/MATLAB package to perform virtual knockout experiments on single-cell gene regulatory networks.

WGBS/NOMe-seq Data Processing & Differential Methylation Analysis

GeneWalk identifies relevant gene functions for a biological context using network representation learning

KGWAS: novel genetics discovery enabled by massive functional genomics knowledge graph

Flexible analysis of high-content CRISPR screening

✂️ Pooled CRISPR screen optimization tool

Examples to get started with IBM Functional Genomics Platform

Robust and efficient analysis of single-cell perturbation studies

Analysis for "K27M in canonical and noncanonical H3 variants occurs in distinct oligodendroglial cell lineages in brain midline gliomas" (Jessa et al, Nature Genetics, 2022)

TnSeq data processing workflow

A system for the integration and analysis of heterogeneous functional genomics data.

Documentation site for the Geneweaver project.

Laboratoare licență anul IV — Bioinformatica și Genomică Funcțională, cu focus pe ML, rețele și GenAI.

A curated list of regulatory genomics papers and resources.

Continuous enrichment profiling for transcriptomes. Characterise how functional programmes are distributed across the expression gradient, with built-in significance testing for single samples. Great for non-model organisms, clinical isolates, and unreplicated datasets.

A client library for the integration and analysis of heterogeneous functional genomics data.

Developed by Qiaoshan Lin in Yaowu Yuan Lab

In-house scripts for data processing and analysis

The core library for GeneWeaver projects.

The GeneWeaver database interaction code.