Alternatives and similar repositories for UQBio2023

Users that are interested in UQBio2023 are comparing it to the libraries listed below

• ElisabethRoesch / Perspective_Julia_for_Biologists
  Online material for the Perspective: "Julia for Biologists" presented at JuliaCon 2021: https://www.youtube.com/watch?v=gRj7E5kYG1I
  ☆100Updated 2 years ago
• kharchenkolab / Baysor
  Bayesian Segmentation of Spatial Transcriptomics Data
  ☆180Updated 6 months ago
• MunskyGroup / uqbio2021
  This is the repository for the 2021 uq-bio Summer School
  ☆12Updated 3 years ago
• HaojiaWu / CellScopes.jl
  A Julia package for single cell and spatial data analysis
  ☆38Updated this week
• MathCancer / PhysiCell
  PhysiCell: Scientist end users should use latest release! Developers please fork the development branch and submit PRs to the dev branch.…
  ☆162Updated 4 months ago
• PhysiBoSS / PhysiBoSS
  PhysiBoSS 2.0: a sustainable integration of stochastic Boolean and agent-based modelling frameworks
  ☆26Updated this week
• RobertGregg / CellularPotts.jl
  Simulate biological cells
  ☆22Updated 2 months ago
• fish-quant / big-fish-examples
  Notebooks to illustrate how BigFISH is working.
  ☆13Updated 2 years ago
• cytomining / pycytominer
  Python package for processing image-based profiling data
  ☆117Updated last week
• slowkow / harmonypy
  🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.
  ☆218Updated 11 months ago
• tlnagy / FCSFiles.jl
  🧫 Read Flow Cytometry Standard (FCS) files in Julia
  ☆17Updated 2 years ago
• theislab / cellrank
  CellRank: dynamics from multi-view single-cell data
  ☆389Updated 2 months ago
• mmkim1210 / GeneticsMakie.jl
  🧬High-performance genetics- and genomics-related data visualization using Makie.jl
  ☆86Updated 3 months ago
• MunskyGroup / uqbio2022
  2nd Annual Undergraduate Quantitative Biology (UQ-bio) Summer School
  ☆16Updated 3 years ago
• theislab / paga
  Mapping out the coarse-grained connectivity structures of complex manifolds.
  ☆222Updated 5 years ago
• scverse / rapids_singlecell
  Rapids_singlecell: A GPU-accelerated tool for scRNA analysis. Offers seamless scverse compatibility for efficient single-cell data proces…
  ☆214Updated this week
• gszep / FlowAtlas.jl
  an interactive explorer for flow cytometry data
  ☆14Updated 11 months ago
• dcjones / proseg
  Probabilistic cell segmentation for in situ spatial transcriptomics
  ☆101Updated last week
• mousepixels / sanbomics
  bioinformatics plotting and tools
  ☆59Updated last year
• broadinstitute / Tangram
  Spatial alignment of single cell transcriptomic data.
  ☆305Updated this week
• sysbio-curie / Neko
  ☆13Updated 2 weeks ago
• BayraktarLab / cell2location
  Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)
  ☆364Updated this week
• agitter / single-cell-pseudotime
  An overview of algorithms for estimating pseudotime in single-cell RNA-seq data
  ☆426Updated last week
• maren-ha / scVI.jl
  A Julia package for fitting VAEs to single-cell data using count distributions.
  ☆24Updated last year
• ingewortel / celltrackR
  An R package for the analysis and interpretation of cell migration tracks.
  ☆13Updated 10 months ago
• PhysiCell-Tools / PhysiCell-Studio
  PhysiCell Studio is a graphical tool to allow easy editing of a (XML) model, create initial positions of cells, run a simulation, and vis…
  ☆25Updated this week
• rajewsky-lab / openst
  Open-ST: profile and analyze tissue transcriptomes in 3D with high resolution in your lab
  ☆101Updated 7 months ago
• fayjustin / computational_biology
  course material
  ☆130Updated 2 years ago
• GuyTeichman / RNAlysis
  Analyze your RNA sequencing data without writing a single line of code
  ☆135Updated 3 weeks ago
• pachterlab / kb_python
  A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing
  ☆162Updated last month