StainTools

Use when preprocessing fMRI data with fMRIPrep. Covers BIDS-compliant preprocessing pipelines, fieldmap correction, ICA-AROMA denoising, confound extraction, surface and volume output spaces, FreeSurf

1 shared topic • 1 shared operation

Giotto Suite — comprehensive R framework for spatial multi-omics analysis supporting 20+ spatial technologies (Visium, MERFISH, Xenium, CosMx, Slide-seq, seqFISH, CODEX, Stereo-seq). Technology-agnost

1 shared topic • 1 shared operation

HistomicsTK — Python toolkit for computational pathology and histopathology image analysis. Provides color normalization and deconvolution of H&E-stained whole-slide images, nuclei segmentation, featu

1 shared topic • 1 shared operation

scimap — Python toolkit for multiplexed imaging spatial single-cell analysis (CODEX, CyCIF, IMC, MIBI, mIHC). Loads MCMICRO quantification CSV outputs into AnnData, performs marker-based hierarchical

1 shared topic • 1 shared operation

Orfeo ToolBox (OTB) is an open-source library for remote sensing image processing. It provides a wide range of state-of-the-art algorithms for high-resolution optical, multispectral, and radar images.

1 shared topic