Zarr

CellGenIT tools from the Wellcome Sanger Institute Cellular Genetics Informatics team. Suite of Python utilities for single-cell genomics including sinto (fragment file generation from BAM), cellhint

3 shared topics • 1 shared operation

ComplexHeatmap — R/Bioconductor package for creating highly customizable heatmaps with complex annotations. Supports row/column splitting, multiple annotation tracks (bar, box, point, histogram), Onco

2 shared topics • 2 shared operations

CPTAC pipelines — Python toolkit for accessing and analyzing Clinical Proteomic Tumor Analysis Consortium (CPTAC) multi-omics cancer data. Provides programmatic download of proteomics, phosphoproteomi

2 shared topics • 2 shared operations

Geneformer — transformer-based foundation model pretrained on ~30 million single-cell transcriptomes for context-specific gene network analysis. Supports fine-tuning for cell type classification, gene

2 shared topics • 2 shared operations

Loom — HDF5-based file format and Python library (loompy) for storing and accessing large single-cell RNA-seq datasets. Supports sparse/dense matrices, row attributes (genes/features), column attribut

2 shared topics • 2 shared operations