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    • R
      GNU General Public License v3.0
      1452Updated Apr 6, 2026Apr 6, 2026
    • A unified interface to spatial transcriptomics deconvolution tools
      R
      GNU General Public License v3.0
      94604Updated Apr 6, 2026Apr 6, 2026
    • Unified access to several second-generation deconvolution methods
      HTML
      GNU General Public License v3.0
      20100282Updated Apr 6, 2026Apr 6, 2026
    • SimBu

      Public
      Simulate pseudo-bulk RNAseq samples from scRNAseq expression data
      R
      GNU General Public License v3.0
      11853Updated Apr 6, 2026Apr 6, 2026
    • A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution methods
      R
      Other
      104540353Updated Apr 6, 2026Apr 6, 2026
    • CSS
      0201Updated Feb 3, 2026Feb 3, 2026
    • Comparison of 2nd generation deconvolution methods implemented in omnideconv
      Jupyter Notebook
      GNU General Public License v3.0
      11032Updated Dec 29, 2025Dec 29, 2025
    • R
      0010Updated Dec 19, 2025Dec 19, 2025
    • SCDC

      Public
      SCDC R package patched and maintained to be used in the omnideconv installation
      R
      12000Updated Oct 24, 2025Oct 24, 2025
    • deconvMe

      Public
      Runs and compares different methylation based cell type deconvolution algorithms
      R
      GNU General Public License v3.0
      0810Updated Jul 30, 2025Jul 30, 2025
    • DWLS

      Public
      DWLS R package patched and maintained to be used in the omnideconv installation
      R
      3100Updated Jul 4, 2025Jul 4, 2025
    • HTML
      59000Updated Mar 25, 2025Mar 25, 2025
    • .github

      Public
      0001Updated Feb 20, 2025Feb 20, 2025
    • AutoGeneS

      Public
      Jupyter Notebook
      MIT License
      10000Updated Oct 2, 2024Oct 2, 2024
    • scaden

      Public
      Deep Learning based cell composition analysis with Scaden.
      Python
      MIT License
      31000Updated Jun 7, 2024Jun 7, 2024
    • CDSeq

      Public
      CDSeq R package patched and maintained to be used in the omnideconv installation
      R
      10000Updated Mar 29, 2024Mar 29, 2024
    • bseqsc

      Public
      Bulk-Sequence Single-Cell Gene Expression Deconvolution Pipeline
      R
      16000Updated Mar 28, 2024Mar 28, 2024
    • Robust method for deconvolving bulk tissue methylation data using least trimmed squares (LTS) regression
      R
      GNU General Public License v3.0
      5100Updated Feb 16, 2024Feb 16, 2024
    • harmony

      Public
      Fast, sensitive and accurate integration of single-cell data with Harmony
      R
      GNU General Public License v3.0
      108000Updated Nov 17, 2022Nov 17, 2022
    • MuSiC

      Public
      Multi-subject Single Cell Deconvolution
      R
      GNU General Public License v3.0
      133000Updated Jul 28, 2022Jul 28, 2022
    • MOMF

      Public
      MOMF R package patched and maintained to be used in the omnideconv installation
      C++
      GNU General Public License v3.0
      8000Updated Nov 23, 2021Nov 23, 2021
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