This is a read-only mirror of the CRAN R package repository. sequenza — Copy Number Estimation from Tumor Genome Sequencing Data. Homepage: https://sequenzatools.bitbucket.io, Mailing list: https://groups.google.com/forum/#!forum/sequenza-user-group Report bugs for this package: https://bitbucket.org/sequenzatools/sequenza/issues
☆22May 9, 2019Updated 7 years ago
Alternatives and similar repositories for sequenza
Users that are interested in sequenza are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Workflow for Sequenza, cellularity and ploidy☆28Jun 1, 2026Updated last week
- All-FIT - Allele-Frequency-based Imputation of Tumor Purity☆18Oct 5, 2019Updated 6 years ago
- ☆126Sep 5, 2023Updated 2 years ago
- Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.☆162Feb 12, 2026Updated 3 months ago
- Accucopy is a computational method that infers Allele-Specific Copy Number alterations from low-coverage low-purity tumor sequencing data…☆17Mar 6, 2024Updated 2 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆32Jul 27, 2023Updated 2 years ago
- ☆11Jun 14, 2023Updated 2 years ago
- Microsatellite Analysis for Normal-Tumor InStability☆78Jul 14, 2022Updated 3 years ago
- ☆13Sep 18, 2017Updated 8 years ago
- ASCAT R package☆202Feb 12, 2026Updated 3 months ago
- scripts to automatically update ANNOVAR db☆19Nov 17, 2021Updated 4 years ago
- ☆43Feb 9, 2024Updated 2 years ago
- A tool for detecting CNVs from WGS data☆11Jul 9, 2020Updated 5 years ago
- A simple implementation of the circular binary segmentation algorithm in python☆26Jan 3, 2019Updated 7 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Automate Absolute Copy Number Calling using 'ABSOLUTE' package☆41Nov 28, 2023Updated 2 years ago
- Code to reproduce "Detecting liver cancer using cell-free DNA fragmentomes☆11Nov 18, 2022Updated 3 years ago
- ☆13Jun 7, 2024Updated 2 years ago
- Singularity port of HLA typing based on an input exome BAM file and is currently infers infers alleles for the three major MHC class I (…☆14Jan 15, 2017Updated 9 years ago
- Optimizing weighted gene co-expression network analysis (WGCNA, an R package) with a multi-threaded calculation of the Topological Overla…☆12Jan 5, 2022Updated 4 years ago
- Useful Utilities for Statistics and Visualization.☆31Jun 26, 2025Updated 11 months ago
- Official code repository for JAX-CNV☆14Jan 16, 2020Updated 6 years ago
- Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.☆118Sep 2, 2024Updated last year
- ⛏ HLA predictions from NGS shotgun data☆56Updated this week
- 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.
- knowledge-based genotyping of cancer hotspots from the tumor BAM files☆22Dec 14, 2021Updated 4 years ago
- Clonal reconstruction from HTS data☆10Oct 27, 2021Updated 4 years ago
- Execute command line tool from R☆20Mar 17, 2026Updated 2 months ago
- ☆12Apr 16, 2026Updated last month
- Clonality Inference in Multiple Tumor Samples using Phylogeny☆15May 8, 2015Updated 11 years ago
- Spatial Computational Inference of MEtastatic Timing (SCIMET)☆14May 28, 2019Updated 7 years ago
- Prostate Cancer Alteration Signature Analysis https://xsliulab.github.io/PC_CNA_signature/☆13May 17, 2021Updated 5 years ago
- A more efficient quality control tool for sequencing data☆33May 27, 2025Updated last year
- ♥ Essential Functions for DNA Manipulation☆20Jun 15, 2025Updated 11 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Conveniently perform ASCAT copy-number analysis from Tumor-Normal or Tumor only BAM files in R☆12Dec 6, 2021Updated 4 years ago
- novoBreak: local assembly for breakpoint detection in cancer genomes☆25May 2, 2018Updated 8 years ago
- Copy number calling and variant classification using targeted short read sequencing☆147Feb 19, 2026Updated 3 months ago
- Inferring expressed genes by whole-genome sequencing of plasma DNA☆19May 23, 2016Updated 10 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆101Apr 20, 2021Updated 5 years ago
- ☆36Apr 17, 2023Updated 3 years ago
- Detecting somatic mutations and predicting tumor-specific neo-antigens☆29Aug 10, 2021Updated 4 years ago