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@complextissue Complex Tissue lab

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    10 repositories

    • pytximport

      Public
      Feature-rich Python implementation of the tximport package for gene count estimation.
      pythonbioinformaticsrna-seq
      pythonbioinformaticsrna-seqdeseq2rnatximportanndatascverse
      Python
      •
      GNU General Public License v3.0
      •2•43•0•2•Updated Apr 8, 2026Apr 8, 2026

    • pyclustree

      Public
      A Python alternative to `clustree` for assessing single-cell RNA-sequencing clusters.
      single-cellscverseclustree
      single-cellscverseclustreepyclustree
      Python
      •
      GNU General Public License v3.0
      •0•13•0•1•Updated Mar 11, 2026Mar 11, 2026

    • spatiomic

      Public
      A Python package for unsupervised analysis of spatial (prote)omics data.
      image-analysisspatial-proteomicsspatial-statistics
      image-analysisspatial-proteomicsspatial-statisticspathologymultiplexed-imagingscversepathoplex
      Python
      •
      GNU General Public License v3.0
      •0•17•0•0•Updated Jan 5, 2026Jan 5, 2026

    • snakemake-bulk-rna-seq-workflow

      Public
      Snakemake workflow for bulk RNA sequencing with pytximport.
      Python
      •
      GNU General Public License v3.0
      •3•7•0•0•Updated Oct 24, 2025Oct 24, 2025

    • PyDESeq2

      Public
      A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
      Python
      •
      MIT License
      •81•0•0•0•Updated Sep 26, 2025Sep 26, 2025

    • pasta

      Public
      Pattern Analysis of SpaTial omics datA
      TeX
      •4•0•0•0•Updated Mar 13, 2025Mar 13, 2025

    • k-DBCV

      Public
      High speed implementation of Density Based Cluster Validation (DBCV)
      Python
      •
      MIT License
      •3•0•0•0•Updated Jan 23, 2025Jan 23, 2025

    • multiSPAETI

      Public
      Implementation of MULTISPATI-PCA in Python
      Python
      •
      MIT License
      •1•0•0•0•Updated Nov 1, 2024Nov 1, 2024

    • xpysom

      Public
      XPySom is a minimalistic implementation of batch Self Organizing Map algorithm
      Python
      •
      GNU General Public License v3.0
      •442•0•0•0•Updated Sep 20, 2023Sep 20, 2023

    • .github

      Public
      0•0•0•0•Updated Feb 2, 2023Feb 2, 2023
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