Reproducing all analyses and figures for the ASAP-seq paper
☆29Jun 11, 2021Updated 4 years ago
Alternatives and similar repositories for asap_reproducibility
Users that are interested in asap_reproducibility are comparing it to the libraries listed below
Sorting:
- ☆15Nov 9, 2018Updated 7 years ago
- ☆16Sep 1, 2023Updated 2 years ago
- 🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…☆29Sep 9, 2021Updated 4 years ago
- kallisto index tag extractor☆20Jul 6, 2019Updated 6 years ago
- An R package for performing cell typing in SMI and other single cell data☆48May 19, 2025Updated 9 months ago
- Code for Nature Scientific Reports 2020 paper: "Unsupervised generative and graph neural methods for modelling cell differentiation" by I…☆18Jul 23, 2020Updated 5 years ago
- A Weighted Exact Test for Mutually Exclusive Mutations in Cancer☆21Sep 30, 2018Updated 7 years ago
- Repository to perform mapping of new datasets to the Human Lung Cell Atlas.☆20Jun 7, 2023Updated 2 years ago
- ☆23Mar 29, 2023Updated 2 years ago
- single cell analysis of treatment naive and treated human PDAC☆25May 27, 2022Updated 3 years ago
- Repository to reproduce all analyses for Lareau*, Ludwig*, et al. 2020☆21Jul 13, 2023Updated 2 years ago
- MultiBreak-SV identifies structural variants from next-generation paired end data, third-generation long read data, or data from a combin…☆12Jul 19, 2016Updated 9 years ago
- Reproducibility for the "Harmonization and Annotation of Single-cell Transcriptomics data with Deep Generative Models" paper☆13Jul 15, 2022Updated 3 years ago
- A public clone of the HypoMap Figure & analysis repository.☆11Sep 26, 2022Updated 3 years ago
- The Tomographer package implements the mathematical spatial image reconstruction of any set of read counts as described in the following …☆11May 15, 2021Updated 4 years ago
- Cell type specific enrichments using finemapped variants and quantitative epigenetic data☆47Sep 1, 2023Updated 2 years ago
- cisTopic: Probabilistic modelling of cis-regulatory topics from single cell epigenomics data☆144Apr 5, 2024Updated last year
- Comparison of dimensionality reduction methods☆30Mar 24, 2020Updated 5 years ago
- Prostate Cancer Alteration Signature Analysis https://xsliulab.github.io/PC_CNA_signature/☆13May 17, 2021Updated 4 years ago
- Bead-based single-cell atac processing☆33Nov 13, 2021Updated 4 years ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆57Jun 1, 2025Updated 9 months ago
- A sandbox for benchmarking detection of out-of-reference cells in single-cell genomics data☆14Oct 21, 2024Updated last year
- ☆12Sep 8, 2021Updated 4 years ago
- ☆15Aug 21, 2025Updated 6 months ago
- DECIPHER for learning high-fidelity disentangled embeddings from spatial omics data☆24Jan 20, 2026Updated last month
- A suite of population scale analysis tools for single-cell genomics data including implementation of Demuxlet / Freemuxlet methods and au…☆58May 5, 2021Updated 4 years ago
- Mosaic single cell data integration using non-overlapping features☆38Sep 20, 2022Updated 3 years ago
- Code for producing the analysis in the "Quantifying the tradeoff between sequencing depth and cell number in single-cell RNA-seq" manuscr…☆16Feb 5, 2020Updated 6 years ago
- Documentation for the cellxgene product☆17Sep 13, 2022Updated 3 years ago
- Helpers for working with ChromHMM (http://compbio.mit.edu/ChromHMM/)☆17Feb 26, 2018Updated 8 years ago
- ☆13Jun 24, 2016Updated 9 years ago
- HiCtrans is a pipeline to call translocations from Hi-C data☆17Sep 27, 2021Updated 4 years ago
- Statistical Inference for Unsupervised Learning☆16Feb 26, 2026Updated last week
- a user-friendly and modular design R package tailored for analyzing single-cell and spatial transcriptome sequencing data of hematopoieti…☆18Apr 17, 2025Updated 10 months ago
- PAthway Representation and Analysis by Direct Inference on Graphical Models☆46Feb 7, 2018Updated 8 years ago
- Hierarchical HotNet is an algorithm for finding hierarchies of active subnetworks.☆38Oct 2, 2019Updated 6 years ago
- DeepCell Kiosk Distribution for Kubernetes on GKE and AWS☆37Jul 12, 2023Updated 2 years ago
- CRC Subtyping Consortium☆13Jun 1, 2018Updated 7 years ago
- Pairwise Hierarchical Model☆20Mar 11, 2022Updated 3 years ago