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Back to qupath/qupath

Open-source alternatives to Qupath

16 open-source projects similar to qupath/qupath, ranked by how many features they have in common. Compare stars, activity and what each one does to find the best Qupath alternative.

  • bactopia/bactopiabactopia avatar

    bactopia/bactopia

    518View on GitHub↗

    A flexible pipeline for complete analysis of bacterial genomes

    Nextflow
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  • bodenmillergroup/imcworkflowB

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  • cellprofiler/cellprofilerCellProfiler avatar

    CellProfiler/CellProfiler

    1,121View on GitHub↗

    An open-source application for biological image analysis

    Python
    View on GitHub↗1,121
  • cellprofiler/cellprofiler-analystC

    CellProfiler/CellProfiler-Analyst

    0View on GitHub↗
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  • chapmanb/bcbio-nextgenchapmanb avatar

    chapmanb/bcbio-nextgen

    1,030View on GitHub↗

    Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

    Python
    View on GitHub↗1,030
  • danifranco/biapyD

    danifranco/BiaPy

    0View on GitHub↗
    View on GitHub↗0
  • fmalmeida/bacannotfmalmeida avatar

    fmalmeida/bacannot

    107View on GitHub↗

    Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.

    Nextflow
    View on GitHub↗107

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  • fmalmeida/ngs-preprocessfmalmeida avatar

    fmalmeida/ngs-preprocess

    36View on GitHub↗

    A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies

    Nextflow
    View on GitHub↗36
  • labsyspharm/ashlarL

    labsyspharm/ashlar

    0View on GitHub↗
    View on GitHub↗0
  • labsyspharm/cylinterL

    labsyspharm/cylinter

    0View on GitHub↗
    View on GitHub↗0
  • labsyspharm/mcmicroL

    labsyspharm/mcmicro

    0View on GitHub↗
    View on GitHub↗0
  • labsyspharm/quantificationL

    labsyspharm/quantification

    0View on GitHub↗
    View on GitHub↗0
  • labsyspharm/scimapL

    labsyspharm/scimap

    0View on GitHub↗
    View on GitHub↗0
  • pentalpha/r-peridotpentalpha avatar

    pentalpha/r-peridot

    7View on GitHub↗

    Software for intuitively doing Differential Gene Expression (DGE) analysis on Windows and GNU\Linux, based on R packages.

    Java
    View on GitHub↗7
  • pycroscopy/atomaipycroscopy avatar

    pycroscopy/atomai

    228View on GitHub↗

    AtomAI is a Pytorch-based package for deep and machine learning analysis of microscopy data that doesn't require any advanced knowledge of Python or machine learning. The intended audience is domain scientists with a basic understanding of how to use NumPy and Matplotlib. It was developed by…

    Python
    View on GitHub↗228
  • vanvalenlab/kiosk-consoleV

    vanvalenlab/kiosk-console

    0View on GitHub↗
    View on GitHub↗0