Repositories list

• ImageArray

  Public
  a framework for on-disk and in-memory image arrays

  R

  •

  Other

  •33 forks•66 stars•44 issues•33 pull requests•Updated Aug 8, 2026Aug 8, 2026

• VoltRon

  Public
  Spatial omic analysis toolbox for multi-resolution and multi-omic integration using image registration

  R

  •

  Other

  •2121 forks•124124 stars•33 issues•33 pull requests•Updated Aug 7, 2026Aug 7, 2026

• pigx_bsseq

  Public
  bisulfite sequencing pipeline from fastq to methylation reports

  bioinformaticssnakemakepipeline+ 2

  bioinformaticssnakemakepipelineguixreproducibility

  Python

  •

  GNU General Public License v3.0

  •44 forks•1313 stars•4747 issues•22 pull requests•Updated Aug 5, 2026Aug 5, 2026

• pigx-common

  Public
  Common infrastructure used by all PiGx pipelines

  Python

  •

  GNU General Public License v3.0

  •11 fork•00 stars•11 issue•22 pull requests•Updated Jul 29, 2026Jul 29, 2026

• pyanglemania

  Public
  Jupyter Notebook

  •

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Jul 23, 2026Jul 23, 2026

• deconvR

  Public
  The deconvR is an R package designed for analyzing deconvolution of the bulk sample(s) using an atlas of reference omic signature profiles and a user-selected m…

  regressionomicsdna-methylation+ 2

  regressionomicsdna-methylationdeconvolutionbioconductor-package

  R

  •33 forks•1010 stars•00 issues•00 pull requests•Updated Jul 22, 2026Jul 22, 2026

• rbcpd

  Public
  An R package wrapper for Bayesian Coherent Point Drift / Domain Elastic Transform

  C++

  •

  Other

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 19, 2026Jul 19, 2026

• bimsbbioinfo.r-universe.dev

  Public
  R-universe BIMSBbioinfo

  00 forks•00 stars•00 issues•00 pull requests•Updated Jul 19, 2026Jul 19, 2026

• bimsbbioinfo.github.io

  Public
  website for the platform

  HTML

  •1212 forks•44 stars•00 issues•44 pull requests•Updated Jul 15, 2026Jul 15, 2026

• flexynesis

  Public
  A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner

  Python

  •

  Other

  •3636 forks•110110 stars•1212 issues•00 pull requests•Updated Jul 15, 2026Jul 15, 2026

• ECG_age

  Public
  Python

  •00 forks•11 star•00 issues•00 pull requests•Updated Jul 8, 2026Jul 8, 2026

• atlas_tissue_representation

  Public
  Code and reproduction for the tissue-supervised VAE bulk RNA-seq manuscript

  Python

  •

  MIT License

  •00 forks•33 stars•00 issues•00 pull requests•Updated Jun 23, 2026Jun 23, 2026

• pigx

  Public
  Pipelines in genomics

  snakemakegenomicsrnaseq+ 4

  snakemakegenomicsrnaseqguixdropseqbisulfite-sequencingchipseq

  HTML

  •

  GNU General Public License v3.0

  •77 forks•2323 stars•99 issues•00 pull requests•Updated Jun 17, 2026Jun 17, 2026

• ECGage

  Public
  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 8, 2026Jun 8, 2026

• flexynesis-guide

  Public
  Getting started with Flexynesis with help from Claude Code

  00 forks•00 stars•00 issues•00 pull requests•Updated Jun 5, 2026Jun 5, 2026

• dummy-spatialdata

  Public
  Generate dummy spatialdata objects

  Python

  •00 forks•33 stars•11 issue•00 pull requests•Updated Jun 4, 2026Jun 4, 2026

• compgen_course_2025_module3

  Public
  Compgen Course 2025, Module 3 Course Material, Multi-omics integration using deep learning

  Jupyter Notebook

  •3131 forks•6565 stars•00 issues•00 pull requests•Updated Jun 3, 2026Jun 3, 2026

• pigx_rnaseq

  Public
  Bulk RNA-seq Data Processing, Quality Control, and Downstream Analysis Pipeline

  snakemakepipelinernaseq+ 2

  snakemakepipelinernaseqguixreproducibility

  Python

  •

  GNU General Public License v3.0

  •1313 forks•2222 stars•2323 issues•00 pull requests•Updated May 29, 2026May 29, 2026

• swineherd

  Public
  Let the Shepherd herd Guix System containers

  TeX

  •

  GNU General Public License v3.0

  •11 fork•3131 stars•11 issue•00 pull requests•Updated May 24, 2026May 24, 2026

• pigx_chipseq

  Public
  Pipeline for Analysis of ChIP-Seq data

  snakemakepipelineguix+ 2

  snakemakepipelineguixreproducibilitychipseq

  Python

  •

  GNU General Public License v3.0

  •1010 forks•1010 stars•6868 issues•11 pull request•Updated May 20, 2026May 20, 2026

• Course_AgenticDataAnalysis

  Public
  Python

  •00 forks•22 stars•00 issues•00 pull requests•Updated May 19, 2026May 19, 2026

• neuroblastoma_gene_sets

  Public
  A repository for documentation and storage of neuroblastoma related gene sets

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 18, 2026May 18, 2026

• cacheR

  Public
  R

  •

  Other

  •00 forks•22 stars•00 issues•00 pull requests•Updated May 18, 2026May 18, 2026

• rstudio

  Public
  RStudio is an integrated development environment (IDE) for R

  Java

  •

  Other

  •1.2k1.2k forks•00 stars•00 issues•00 pull requests•Updated May 16, 2026May 16, 2026

• RSimpleITK

  Public
  R Installer for SimpleITK with Elastix

  Shell

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 13, 2026May 13, 2026

• VoltRonStore

  Public
  On-Disk support and dependancies for VoltRon

  Other

  •11 fork•00 stars•00 issues•00 pull requests•Updated Apr 27, 2026Apr 27, 2026

• ZarrDataFrame

  Public
  R

  •

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•Updated Apr 27, 2026Apr 27, 2026

• pycacheR

  Public
  Python

  •

  Other

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 15, 2026Apr 15, 2026

• OMERarr

  Public
  An R package for reading, writing and validating OME-Zarr (meta)data (based on ome-zarr-models.py)

  R

  •11 fork•00 stars•66 issues•00 pull requests•Updated Apr 10, 2026Apr 10, 2026

• protEncode

  Public
  Repository relating to the pipeline on using attention-weighted PLMs.

  Python

  •

  Creative Commons Zero v1.0 Universal

  •00 forks•11 star•11 issue•00 pull requests•Updated Apr 6, 2026Apr 6, 2026