High-definition reconstruction of clonal composition from next-generation sequencing data
☆42Jun 10, 2016Updated 9 years ago
Alternatives and similar repositories for cloneHD
Users that are interested in cloneHD are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Computational Framework to reconstructing tumor clone structures☆15Mar 31, 2021Updated 4 years ago
- ☆12Feb 19, 2017Updated 9 years ago
- An algorithm for clonal tree reconstruction from multi-sample cancer sequencing data☆14Apr 1, 2018Updated 7 years ago
- Application for inferring subclonal composition and evolution from whole-genome sequencing data.☆114Oct 12, 2022Updated 3 years ago
- Flexible Bayesian inference of mutational signatures☆41Jan 30, 2023Updated 3 years ago
- highly-efficient & lightweight mutation signature matrix aggregation☆19Jan 12, 2022Updated 4 years ago
- A configurable de novo assembly pipeline☆29Jun 29, 2016Updated 9 years ago
- Homebrew formulae for bioinformatics software only available for Linux☆27Aug 23, 2019Updated 6 years ago
- Battenberg algorithm and associated implementation script☆53Oct 21, 2020Updated 5 years ago
- EXPERIMENTAL implementation of side graph☆10Apr 16, 2015Updated 10 years ago
- A tool to examine duplicate read characteristics in a BAM file☆12Dec 8, 2017Updated 8 years ago
- Irons out wrinkles in noisy coverage data using robust PCA☆15May 14, 2025Updated 10 months ago
- Multi-sample cancer phylogeny reconstruction☆36Oct 19, 2017Updated 8 years ago
- Build components for CloudMan, Galaxy on the Cloud, or Galaxy Server☆20Jun 27, 2017Updated 8 years ago
- BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants☆25Mar 17, 2016Updated 10 years ago
- Parallel Recipes : parallel workflow execution made easy☆13Sep 1, 2015Updated 10 years ago
- An ultra fast and accurate paired-end adapter trimmer that needs no a priori adapter sequences.☆22Jan 19, 2021Updated 5 years ago
- A deme-based, spatially explicit model of intra-tumour population genetics☆21Jan 28, 2025Updated last year
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Apr 16, 2021Updated 4 years ago
- Hemang Parikh☆11Jan 12, 2016Updated 10 years ago
- Haplotype-based somatic genome simulator☆10May 19, 2017Updated 8 years ago
- Docker containers that demonstrate a proof of concept bwa alignment workflow☆14Jan 13, 2015Updated 11 years ago
- normalize, left-align, trim, validate and clean VCF files☆20Jul 22, 2015Updated 10 years ago
- Gene lists related to cancer immunotherapy☆14Sep 11, 2024Updated last year
- laSV is a software package that employs local assembly to detect structural variations from whole-genome high-throughput sequencing datas…☆12Sep 26, 2016Updated 9 years ago
- Subclonal Hierarchy Inference from Somatic Mutations☆21Feb 25, 2025Updated last year
- R package for inferring copy number from read depth☆33Sep 30, 2022Updated 3 years ago
- Normalization and difference calling for Next Generation Sequencing (NGS) data via joint multinomial modeling.☆11Oct 8, 2021Updated 4 years ago
- An Expectation-Maximization algorithm to infer mutational signatures☆27Nov 16, 2016Updated 9 years ago
- Simplify snpEff annotations for interesting cases☆22Feb 18, 2019Updated 7 years ago
- Alignment and variant-calling pipeline for Illumina HIV sequences.☆11May 19, 2020Updated 5 years ago
- Battenberg R package for subclonal copynumber estimation☆95Feb 20, 2026Updated last month
- Convert VCF (Variant Call Format) into TCGA MAF (Mutation Annotation Format)☆15Jul 15, 2016Updated 9 years ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆10Jun 13, 2023Updated 2 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆100Apr 20, 2021Updated 4 years ago
- ☆45Jul 7, 2016Updated 9 years ago
- Directly create a bigwig file with signal derived from a sorted and indexed bam file.☆11Jul 7, 2017Updated 8 years ago
- De-novo Assembly Structural Variant Caller☆13Sep 15, 2016Updated 9 years ago
- ☆15Mar 7, 2016Updated 10 years ago