Alex's Lemonade Stand Foundation

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77 repositories

scpca-nf
Public
scpca-nf is the Nextflow workflow for processing Single-cell Pediatric Cancer Atlas Portal data
nextflow scrna-seq 10xgenomics spatial-transcriptomics cite-seq rna-seq-quantification alevin-fry
R
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BSD 3-Clause "New" or "Revised" License
•2•14•53•2•Updated Aug 17, 2025Aug 17, 2025
scpca-portal
Public
Single-cell Pediatric Cancer Atlas Portal is a growing database of uniformly processed single-cell data from pediatric cancer tumors and model systems
bioinformatics single-cell
Python
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BSD 3-Clause "New" or "Revised" License
•0•4•77•13•Updated Aug 15, 2025Aug 15, 2025
scpcaTools
Public
R
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BSD 3-Clause "New" or "Revised" License
•0•1•14•1•Updated Aug 15, 2025Aug 15, 2025
medulloblastoma-classifier
Public
HTML
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BSD 3-Clause "New" or "Revised" License
•0•0•22•4•Updated Aug 15, 2025Aug 15, 2025
OpenScPCA-analysis
Public
An open, collaborative project to analyze data from the Single-cell Pediatric Cancer Atlas (ScPCA) Portal
openscience single-cell
HTML
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Other
•23•14•50•3•Updated Aug 14, 2025Aug 14, 2025
scpca-docs
Public
User information about ScPCA processing
Python
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BSD 3-Clause "New" or "Revised" License
•1•0•13•0•Updated Aug 14, 2025Aug 14, 2025
ScPCA-manuscript
Public
The manuscript repository for the Single-cell Pediatric Cancer Atlas (ScPCA)
HTML
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Creative Commons Attribution 4.0 International
•1•0•0•0•Updated Aug 12, 2025Aug 12, 2025
2025-august-training
Public
HTML
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Other
•0•0•0•0•Updated Aug 8, 2025Aug 8, 2025
OpenScPCA-nf
Public
A workflow for running OpenScPCA analysis modules
R
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BSD 3-Clause "New" or "Revised" License
•0•1•9•0•Updated Jul 30, 2025Jul 30, 2025
training-modules
Public
A collection of modules that are combined into 1-5 day workshops on computational topics for the childhood cancer research community.
HTML
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Other
•31•70•33•0•Updated Jul 17, 2025Jul 17, 2025
rOpenScPCA
Public
R package to support analysis in the OpenScPCA project
HTML
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Other
•2•0•7•2•Updated Jul 7, 2025Jul 7, 2025
2025-june-training
Public
HTML
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Other
•0•0•0•0•Updated Jun 9, 2025Jun 9, 2025
alsf-scpca
Public
Management and analysis tools for ALSF Single-cell Pediatric Cancer Atlas data.
HTML
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BSD 3-Clause "New" or "Revised" License
•1•0•6•0•Updated Jun 3, 2025Jun 3, 2025
refinebio-web
Public
Refinebio Web
JavaScript
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BSD 3-Clause "New" or "Revised" License
•0•1•34•0•Updated May 29, 2025May 29, 2025
training-specific-template
Public template
Template repository that can be cloned to create repo for administering a specific training workshop
HTML
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Other
•2•0•2•0•Updated May 22, 2025May 22, 2025
scpca-paper-figures
Public
Figures for https://github.com/AlexsLemonade/ScPCA-manuscript/
HTML
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BSD 3-Clause "New" or "Revised" License
•0•0•4•0•Updated May 19, 2025May 19, 2025
2025-treehouse-training
Public
Reproducible Research Practices and Code Review Workshop for UCSC Treehouse Childhood Cancer Initiative
Shell
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Creative Commons Attribution 4.0 International
•0•0•2•0•Updated Apr 8, 2025Apr 8, 2025
rrp-workshop-exercises
Public
Materials for reproducible research practices workshop exercises.
HTML
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Other
•49•1•0•0•Updated Apr 2, 2025Apr 2, 2025
2025-march-training
Public
HTML
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Other
•0•0•0•0•Updated Mar 19, 2025Mar 19, 2025
resources-portal
Public
Python
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BSD 3-Clause "New" or "Revised" License
•1•1•88•4•Updated Mar 6, 2025Mar 6, 2025
refinebio-examples
Public
Example workflows for refine.bio data
gene-expression pathway-analysis differential-expression notebook biodata
HTML
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Other
•6•11•32•1•Updated Jan 14, 2025Jan 14, 2025
2024-december-training
Public
HTML
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Other
•0•0•0•0•Updated Dec 11, 2024Dec 11, 2024
refinebio-js
Public
Javascript client for refine.bio
JavaScript
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BSD 3-Clause "New" or "Revised" License
•0•0•7•8•Updated Nov 20, 2024Nov 20, 2024
reproducible-research
Public
Repository for Reproducible Research Practices Training Workshop
HTML
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Other
•3•1•16•0•Updated Oct 18, 2024Oct 18, 2024
refinebio
Public
Refine.bio harmonizes petabytes of publicly available biological data into ready-to-use datasets for cancer researchers and AI/ML scientists.
Python
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Other
•20•132•489•14•Updated Sep 3, 2024Sep 3, 2024
2024-august-training
Public
Website for Data Lab "Introduction to RNA-Seq and Reproducible Research" Training, August 2024 at UMN
HTML
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Other
•0•1•0•0•Updated Aug 22, 2024Aug 22, 2024
refinebio-py
Public
A python client for the refine.bio API.
Python
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BSD 3-Clause "New" or "Revised" License
•3•1•11•2•Updated Aug 21, 2024Aug 21, 2024
.github
Public
1•0•0•0•Updated Jul 18, 2024Jul 18, 2024
scrumlord
Public
Continuous administration of the Greene Lab's electronic scrum
Python
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BSD 3-Clause "New" or "Revised" License
•9•0•0•0•Updated Jul 16, 2024Jul 16, 2024
spellcheck
Public
This repository contains a Docker image with the R spelling package
R
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MIT License
•1•0•1•0•Updated Jun 13, 2024Jun 13, 2024