PENCIL is a novel tool for singlecell data analysis to identify phenotype associated subpopulations and informative genes simultaneously.
☆32Jan 21, 2024Updated 2 years ago
Alternatives and similar repositories for PENCIL
Users that are interested in PENCIL are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A sandbox for benchmarking detection of out-of-reference cells in single-cell genomics data☆14Oct 21, 2024Updated last year
- ☆20Apr 30, 2025Updated last year
- ☆32Mar 30, 2025Updated last year
- Official implementation of JAMIE, Joint variational Autoencoders for Multimodal Imputation and Embedding☆16Sep 11, 2025Updated 7 months ago
- Publication Page for the Noack et al. 2021 Nature Neuroscience paper☆10Feb 7, 2022Updated 4 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- ☆17Jul 12, 2024Updated last year
- Code for the paper: Mixed Models with Multiple Instance Learning☆21Nov 10, 2025Updated 5 months ago
- CellANOVA: Cell State Space Analysis of Variance for signal recovery in single cell batch integration☆53Oct 31, 2024Updated last year
- Geometry-preserving random sampling☆97Oct 29, 2024Updated last year
- CircSplice☆11Feb 27, 2019Updated 7 years ago
- Simple simulation of single-cell RNA sequencing data☆233Apr 16, 2026Updated 2 weeks ago
- Clone of the Bioconductor repository for the MouseGastrulationData package.☆13Jan 24, 2024Updated 2 years ago
- Systematic analyses of intronic polyadenylation from standard RNAseq data☆16Sep 10, 2024Updated last year
- Flexible Integration of single-cell RNA-sequencing data for large-scale Multi-tissue cell atlas datasets☆13Sep 20, 2022Updated 3 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Custom codes accompanying single cell spatial transcriptomic study on the healthy human lung☆14Dec 27, 2023Updated 2 years ago
- ☆19Dec 1, 2021Updated 4 years ago
- ☆16Sep 1, 2023Updated 2 years ago
- Python code for cross-condition label refinement in single-cell data with HiDDEN☆14Sep 21, 2024Updated last year
- SPecies level IdentificatioN of metaGenOmic amplicons☆11Apr 11, 2018Updated 8 years ago
- ☆28Nov 21, 2019Updated 6 years ago
- ☆26Jan 10, 2025Updated last year
- ☆13Jan 23, 2025Updated last year
- Weakly supervised learning uncovers phenotypic signatures in single-cell data☆39Dec 17, 2025Updated 4 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- ☆10Mar 11, 2022Updated 4 years ago
- A single-cell transcriptomic analysis of endometriosis, endometriomas, eutopic endometrial samples and uninvolved ovary tissues highlight…☆18Jan 12, 2023Updated 3 years ago
- Scissor package☆262May 10, 2024Updated last year
- ☆62Apr 5, 2024Updated 2 years ago
- Spatial-Linked Alignment Tool☆92Dec 20, 2024Updated last year
- ☆14Mar 17, 2022Updated 4 years ago
- Code of "Bayes-MIL: A New Probabilistic Perspective on Attention-based Multiple Instance Learning for Whole Slide Images" - ICLR 2023☆21Nov 26, 2023Updated 2 years ago
- Enhanced Chromatin Occupancy (EChO)☆13Jan 8, 2020Updated 6 years ago
- ☆19Jun 16, 2023Updated 2 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- ☆17Aug 1, 2023Updated 2 years ago
- Official repository for Characterization of tumor heterogeneity through segmentation-free representation learning on multiplexed imaging …☆15Sep 28, 2025Updated 7 months ago
- Causal inference, differential expression, and co-expression for scRNA-seq☆21Dec 19, 2025Updated 4 months ago
- ☆19Dec 15, 2023Updated 2 years ago
- Scripts and datasets to reproduce the experiment of the paper "Exploring non-coding RNA functions with deep learning tools"☆16Mar 24, 2021Updated 5 years ago
- Methods for inferring undirected networks from data☆47Mar 17, 2021Updated 5 years ago
- This repository contains HCA Benchmarking codes☆26Nov 11, 2019Updated 6 years ago