Alternatives and similar repositories for h5cat

Users that are interested in h5cat are comparing it to the libraries listed below

• epiviz / epiviz.gl

  View on GitHub
  Visualize genomic data using webgl and webworkers, in an effort to provide a fluid, high-performance user experience.
  ☆11May 24, 2024Updated last year
• ggirelli / iFISH-probe-design

  View on GitHub
  iFISH Probe Design: a Python3 package to build iFISH probes.
  ☆12Mar 11, 2022Updated 3 years ago
• wahlby-lab / graph-iss

  View on GitHub
  Graph-based Decoding for In Situ Sequencing
  ☆10Jul 2, 2020Updated 5 years ago
• lewlin / a-large-image-tiler

  View on GitHub
  (Python3, PyQt5) GUI software to tile large images. Designed to image 96-well plates used in wet labs.
  ☆12Jun 28, 2018Updated 7 years ago
• waliens / sldc

  View on GitHub
  An open-source Python framework created for accelerating development of large image analysis workflows
  ☆10Sep 9, 2022Updated 3 years ago
• GangCaoLab / DLO-HiC-Tools

  View on GitHub
  Tools for DLO HiC data analyze
  ☆16Oct 31, 2022Updated 3 years ago
• beliveau-lab / PaintSHOP_pipeline

  View on GitHub
  A scalable machine learning pipeline for probe specificity prediction.
  ☆14Jan 23, 2024Updated 2 years ago
• alxndrkalinin / cubic

  View on GitHub
  CUDA-accelerated 3D BioImage Computing (ICCV BIC 2025)
  ☆27Updated this week
• Nanguage / oneFace

  View on GitHub
  Generating interfaces(CLI, Qt GUI, Dash web app) from a Python function or a command program.
  ☆41Apr 1, 2023Updated 2 years ago
• samuell / scicommander

  View on GitHub
  Run shell commands in a scientifically reproducible and robust way
  ☆24Jan 21, 2026Updated 3 weeks ago
• ay-lab / selfish

  View on GitHub
  SELFISH is a tool for finding differential chromatin interactions between two Hi-C contact maps.
  ☆17Jun 1, 2023Updated 2 years ago
• jni / affinder

  View on GitHub
  Quickly find the affine matrix mapping one image to another using manual correspondence points annotation
  ☆22Aug 6, 2025Updated 6 months ago
• pepkit / looper

  View on GitHub
  Modular job submitter for arbitrary pipelines or commands.
  ☆24Nov 6, 2025Updated 3 months ago
• 10XGenomics / rust-bwa

  View on GitHub
  Rust wrapper of the BWA C API
  ☆18May 23, 2025Updated 8 months ago
• zhangtianyuan666 / EasyGenome

  View on GitHub
  a user-friendly and flexible pipeline for prokaryote genome analysis
  ☆69Jan 26, 2026Updated 2 weeks ago
• Human-Centric-Machine-Learning / curb

  View on GitHub
  Code for "An Online Algorithm to Reduce the Spread of Misinformation in Social Networks", WSDM 2018
  ☆27Jan 8, 2018Updated 8 years ago
• Biomedical-Imaging-Group / OrientationJ

  View on GitHub
  ImageJ's plugin for directional analysis in images: color-coded analysis, distribution of orientation, vector field, keypoint detection
  ☆30Oct 21, 2024Updated last year
• ADanckaert / MuscleJ

  View on GitHub
  A high content analysis method to study skeletal muscle
  ☆12Apr 26, 2024Updated last year
• TaoYang-dev / hicrep

  View on GitHub
  R package to evaluate the reproducibility of Hi-C data
  ☆27Jun 23, 2023Updated 2 years ago
• higlass / higlass-python

  View on GitHub
  Python bindings to and Jupyter Notebook+Lab integration for the HiGlass viewer
  ☆64Nov 24, 2025Updated 2 months ago
• choldgraf / gitautopush

  View on GitHub
  Quickly copy in changes to a file and push code to a git repository used for teaching
  ☆79Oct 25, 2021Updated 4 years ago
• bioimage-io / core-bioimage-io-python

  View on GitHub
  Python libraries for loading, running and packaging bioimage.io models
  ☆35Feb 3, 2026Updated last week
• BBQuercus / deepBlink

  View on GitHub
  Threshold independent detection and localization of diffraction-limited spots.
  ☆38Nov 1, 2022Updated 3 years ago
• ome / napari-ome-zarr

  View on GitHub
  A napari plugin for zarr backed OME-NGFF images
  ☆43Jan 19, 2026Updated 3 weeks ago
• Marsilea-viz / legendkit

  View on GitHub
  Legend made easy for matplotlib
  ☆32Jun 7, 2025Updated 8 months ago
• flowsaber / flowsaber

  View on GitHub
  Dataflow based workflow framework
  ☆41May 15, 2021Updated 4 years ago
• JinLabBioinfo / HiCorr

  View on GitHub
  HiCorr: a Hi-C data bias-correction pipeline
  ☆30Apr 1, 2025Updated 10 months ago
• JinLabBioinfo / DeepLoop

  View on GitHub
  DeepLoop robustly identifies enhancer-promoter interactions from low-depth and single-cell Hi-C data
  ☆34Apr 1, 2025Updated 10 months ago
• rosalindfranklininstitute / RedLionfish

  View on GitHub
  ☆36Mar 22, 2024Updated last year
• brookstaylorjr / MACKtrack

  View on GitHub
  Automated cell tracking package for MATLAB
  ☆11Feb 21, 2019Updated 6 years ago
• teddylee777 / teddylee777.github.io-old

  View on GitHub
  It's a personal blog adopted from cayman-blog
  ☆11Jan 17, 2023Updated 3 years ago
• kisa002 / ChatBot_Tutorial

  View on GitHub
  하드코딩으로 아주아주 간단한 챗봇
  ☆10May 25, 2018Updated 7 years ago
• pharmbio / cellprofiler-docker

  View on GitHub
  Dockerfile to build a working CellProfiler (http://cellprofiler.org/) image
  ☆11Jun 2, 2022Updated 3 years ago
• MemVerge / nf-float

  View on GitHub
  MemVerge Netflow Plugin
  ☆16Jun 24, 2025Updated 7 months ago
• NickChecan / hana-to-python

  View on GitHub
  A common Python Flask application with access to a Hana trial instance provided by SAP
  ☆15Sep 12, 2024Updated last year
• JiaqiLiZju / Nvwa

  View on GitHub
  ☆36Sep 25, 2022Updated 3 years ago
• ben-rogerson / mezz

  View on GitHub
  📐👁️ React hooks for building responsive and adaptable web interfaces
  ☆37Oct 13, 2025Updated 4 months ago
• paulsengroup / hictk

  View on GitHub
  Blazing fast toolkit to work with .hic and .cool files
  ☆42Feb 2, 2026Updated last week
• YosefLab / FastProject

  View on GitHub
  Dimensionality reduction for single cell RNA-seq data
  ☆36Feb 9, 2020Updated 6 years ago