reiterlab / treeomicsLinks
Decrypting somatic mutation patterns to reveal the evolution of cancer
☆56Updated 4 years ago
Alternatives and similar repositories for treeomics
Users that are interested in treeomics are comparing it to the libraries listed below
Sorting:
- Identifying recurrent mutations in cancer☆39Updated 4 years ago
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆44Updated 3 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72Updated last year
- Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing.☆70Updated 4 years ago
- ChIP-seq DC and QC Pipeline☆36Updated 4 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests☆50Updated last year
- Disambiguation algorithm for reads aligned to human and mouse genomes using Tophat or BWA mem☆31Updated 7 years ago
- Somatic copy variant caller (CNV) for next generation sequencing☆75Updated last year
- ☆44Updated 7 years ago
- DeTiN is designed to measure tumor-in-normal contamination and improve somatic variant detection sensitivity when using a contaminated ma…☆53Updated 3 years ago
- ☆72Updated 2 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆98Updated 4 years ago
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆72Updated 5 years ago
- Create a *de novo* alternative splicing database, validate splicing events, and quantify percent spliced-in (Psi) from RNA seq data☆67Updated 5 years ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆31Updated 9 months ago
- An R package for inferring the subclonal architecture of tumors☆122Updated 2 years ago
- Mutational signature analysis for low statistics SNV data☆64Updated last year
- Battenberg algorithm and associated implementation script☆53Updated 5 years ago
- Battenberg R package for subclonal copynumber estimation☆93Updated 3 weeks ago
- Filters for false-positive mutation calls in NGS☆34Updated 6 years ago
- SPP - R package for analysis of ChIP-seq and other functional sequencing data☆43Updated 4 years ago
- Package Homepage: http://bioconductor.org/packages/devel/bioc/html/annotatr.html Bug Reports: https://support.bioconductor.org/p/new/post…☆27Updated 2 months ago
- identifying mutational significance in cancer genomes☆62Updated 3 years ago
- Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19☆77Updated last year
- Genomic Identification of Significant Targets in Cancer (GISTIC), version 2☆53Updated 3 years ago
- bradner lab computation pipeline scripts☆54Updated 4 months ago
- Create regional association plots from GWAS or meta-analysis☆61Updated 5 years ago
- Junction Based Analysis of Splicing Events for RNA-Seq☆33Updated 3 months ago
- Tumor Mutational Burden☆63Updated 5 months ago