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Notebooks for financial economics. Keywords: Jupyter notebook pandas Federal Reserve FRED Ferbus GDP CPI PCE inflation unemployment wage income debt Case-Shiller housing asset portfolio equities SPX bonds TIPS rates currency FX euro EUR USD JPY yen XAU gold Brent WTI oil Holt-Winters time-series forecasting statistics econometrics
Multi-Omics Factor Analysis
Reference mapping for single-cell genomics
Genomic Pretrained Network - GPN, GPN-MSA, PhyloGPN, GPN-Star
Fusing Histology and Genomics via Deep Learning - IEEE TMI
Pan-Cancer Integrative Histology-Genomic Analysis via Multimodal Deep Learning - Cancer Cell
Haplotype-aware CNV analysis from single-cell RNA-seq, ATAC-seq, and multiome
Cancer Imaging Phenomics Toolkit (CaPTk) is a software platform to perform image analysis and predictive modeling tasks. Documentation: https://cbica.github.io/CaPTk
Repository for Nicheformer: a foundation model for single-cell and spatial omics
Read and write Neuroglancer datasets programmatically.
Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
Quantitative Economics
Official repo for CellPLM: Pre-training of Cell Language Model Beyond Single Cells.
NeuroAnatomy Toolbox: An R package for the (3D) visualisation and analysis of biological image data, especially tracings of single neurons.
Peax is a tool for interactive visual pattern search and exploration in epigenomic data based on unsupervised representation learning with autoencoders
Machine learning for Analysis of Proteomics in Spatial biology - Nature Communications
Autonomous multi-agent framework to optimize scientific software
Deep learning model for single-cell inference of multi-omic profiles from a single input modality.
MCP server for spatial transcriptomics analysis through natural language interfaces.