Code used to generate the results in "Somatic chronology of treatment-resistant prostate cancer via deep whole-genome ctDNA sequencing"
☆16Mar 11, 2024Updated 2 years ago
Alternatives and similar repositories for cfdna-wgs-manuscript-code
Users that are interested in cfdna-wgs-manuscript-code are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Scalable tumor phylogeny inference and validation from single-cell RNA or DNA data☆14Dec 24, 2023Updated 2 years ago
- Clonal structure identification through penalizing pairwise differences☆11Nov 25, 2025Updated 4 months ago
- R wrapper for utilizing the SigProfilerMatrixGenerator framework☆20Jan 29, 2026Updated 2 months ago
- DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…☆22May 21, 2024Updated last year
- ☆16Aug 11, 2021Updated 4 years ago
- Serverless GPU API endpoints on Runpod - Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Tumor Phylogeny Reconstruction via Integrative use of Single Cell and Bulk Sequencing Data☆11Jul 13, 2020Updated 5 years ago
- Custom scripts used in "Spatiotemporal DNA Methylome Dynamics of the Developing Mammalian Fetus"☆11Oct 15, 2020Updated 5 years ago
- Code and files accompanying article "The landscape of somatic mutation in normal colorectal epithelial cells"☆11Mar 21, 2021Updated 5 years ago
- ☆25Aug 24, 2025Updated 7 months ago
- Methods to use SNPs or gene expression to classify single cell RNAseq to reference profiles☆30Apr 16, 2020Updated 5 years ago
- ☆11May 21, 2024Updated last year
- Spatial Computational Inference of MEtastatic Timing (SCIMET)☆14May 28, 2019Updated 6 years ago
- Code associated with MIX-seq manuscript☆15Aug 26, 2020Updated 5 years ago
- python codes for iDNA-ABF: multi-scale deep biological language learning model for the accurate and interpretable prediction of DNA methy…☆15May 6, 2024Updated last year
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆29Apr 10, 2019Updated 7 years ago
- ☆18Jan 30, 2023Updated 3 years ago
- MethyLYZR: a Naïve Bayesian framework for rapid brain tumor classification from sparse epigenomic data☆18Mar 3, 2025Updated last year
- Custom code for processing Parse Bio snRNA-seq data generated by the Mortazavi lab at UCI☆19Oct 5, 2025Updated 6 months ago
- ☆14Jan 20, 2019Updated 7 years ago
- ☆26Aug 8, 2024Updated last year
- ☆11May 26, 2023Updated 2 years ago
- ☆16May 13, 2022Updated 3 years ago
- Method used in the study on germline mutation rate estimation in 68 species of vertebrates.☆16Oct 11, 2021Updated 4 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- Quality control for phylogenetic analyses☆13Mar 16, 2026Updated 3 weeks ago
- Allele-Specific Quantification of Structural Variations in Cancer Genomes☆18Mar 5, 2019Updated 7 years ago
- Computational identification of targets for CAR-T cell therapy in AML☆21Dec 25, 2022Updated 3 years ago
- a bioinformatics tool for simulating single-cell genome sequencing data☆10Dec 19, 2019Updated 6 years ago
- Scripts used for the ACT paper☆12May 6, 2021Updated 4 years ago
- ☆22Jul 2, 2020Updated 5 years ago
- Windows Open and Save dialogs in Rust using winapi☆22Oct 3, 2025Updated 6 months ago
- SCAN2 is a somatic SNV and indel genotyper for single cells amplified by Primary Template-Directed Amplification (PTA)☆17Jul 28, 2025Updated 8 months ago
- The EnsembleVariantCallingPipeline takes files in FASTQ or BAM format and performs SNV and INDEL variant calling from 4 variant callers (…☆14Jul 24, 2025Updated 8 months ago
- Deploy open-source AI quickly and easily - Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Calculates the Variant Allele Fraction of variants in VCF files☆19Nov 28, 2024Updated last year
- CNV analysis workflow code for the manuscript☆13Jun 22, 2020Updated 5 years ago
- This is the repository for SeCNV, a single cell copy number profiling tool.☆12Dec 12, 2024Updated last year
- Absolute Copy Number Estimation using low-coverage whole genome sequencing data☆20Oct 17, 2025Updated 5 months ago
- Nextflow pipeline for Mutect2 somatic variant calling best practices☆23Jun 14, 2024Updated last year
- 📚书：R语言实战机器学习☆58Nov 3, 2024Updated last year
- Code and data from Koche et al. Extrachromosomal circular DNA drives oncogenic genome remodeling in neuroblastoma (2020)☆15Nov 5, 2020Updated 5 years ago