Deconvolution Python Packages

hide-deconv

Repository for ECCB 2026 Poster Submission. Will be made available for reviewing after submission. For earlier access contact Dennis.k.volkl@uib.no

chatspatial

MCP server for spatial transcriptomics analysis through natural language interfaces.

mumfordshah2d

Algorithms for edge preserving smoothing based on the Mumford-Shah model

lls-core

Napari plugin for custom analysis and visualization of lattice lightsheet and Oblique Plane Microscopy data. The plugin is optimized for data from the Zeiss lattice lightsheet microscope.

pyunfold

Iterative unfolding for Python

pyspfm

Sparse hemodynamic deconvolution of fMRI data with scikit-learn compatible estimators.

flashdeconv

Fast spatial deconvolution via leverage-score sketching — scales to million-spot datasets while preserving rare cell type signals.

deconvolawrence

Automated deconvolution of Bruker mass spectra datasets using UniDec

acscend

Comprehensive Enumeration of Cancer Stem-like Cell Heterogeneity Using Deep Neural Network

covidxai

Implementation of explainability algorithms (layer-wise relevance propagation, local interpretable model-agnostic explanations, gradient-weighted class activation mapping) on computer vision architectures to identify and explain regions of COVID 19 pneumonia in chest X-ray and CT scans.

scaden

Cell type deconvolution using single cell data

napari-lattice

Napari plugin for analysing and visualizing lattice lightsheet and Oblique Plane Microscopy data.

bafpipe

Automated deconvolution and analysis of Bruker mass spectra datasets using UniDec

abundancematching

A Python package for subhalo abundance matching (SHAM) with scatter.

faim-huygens

Tools to interact with SVI Huygens from Python

declust

A cluster-based cell-type deconvolution of spatial transcriptomic data (DECLUST)

birfi

Blind instrument response function identification from fluorescence decays

hrm-omero

A connector between OMERO and a Huygens Remote Manager (HRM) server. [ARCHIVED]

splora

Sparse and Low-Rank Paradigm Free Mapping.

pydeconv

Python implementation of bulk RNAseq deconvolution algorithms

jolideco

A Python package for Poisson joint likelihood deconvolution