stjude / RNAIndelLinks
Somatic indel discovery tool for tumor RNA-Seq data.
☆24Updated 2 months ago
Alternatives and similar repositories for RNAIndel
Users that are interested in RNAIndel are comparing it to the libraries listed below
Sorting:
- An R package for predicting HR deficiency from mutation contexts☆30Updated 11 months ago
- Dirichlet Process based methods for subclonal reconstruction of tumours☆32Updated 10 months ago
- Model-based tumour subclonal deconvolution using population genetics☆34Updated 2 months ago
- Codes and Data for FFPEsig manuscript☆17Updated 2 years ago
- Main repository for Drews et al. (Nature, 2022)☆42Updated 2 years ago
- CNApp represents the first web tool to perform a comprehensive and integrative analysis of copy number alterations (CNAs) in a user-frien…☆20Updated 6 years ago
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 7 years ago
- Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data☆21Updated last year
- Fork of https://bitbucket.org/mcgranahanlab/lohhla☆18Updated 5 years ago
- Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…☆42Updated last year
- Irons out wrinkles in noisy coverage data using robust PCA☆15Updated 8 months ago
- A computational method for inferring the cancer cell fraction of tumour structural variation from whole-genome sequencing data.☆42Updated 5 months ago
- Comprehensive genome-wide visualization of absolute copy number and copy neutral variations☆29Updated 6 years ago
- Code and data from Koche et al. Extrachromosomal circular DNA drives oncogenic genome remodeling in neuroblastoma (2020)☆15Updated 5 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆32Updated 2 years ago
- DriverPower☆26Updated last year
- software for analysis of chromatin feature occupancy profiles from high-throughput sequencing data☆17Updated 6 years ago
- Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data☆35Updated last year
- ☆36Updated 6 years ago
- ☆13Updated 8 years ago
- A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations☆35Updated 4 years ago
- An R package to time somatic mutations☆65Updated 5 years ago
- Algorithm for detecting alternative splicing in a population of single cells. See details in Welch et al., Nucleic Acids Research 2016: h…☆23Updated 9 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Updated 4 years ago
- An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.☆72Updated last year
- Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation☆25Updated last week
- All-FIT - Allele-Frequency-based Imputation of Tumor Purity☆18Updated 6 years ago
- ☆27Updated 2 years ago
- Disambiguation algorithm for reads aligned to human and mouse genomes using Tophat or BWA mem☆31Updated 7 years ago
- SigProfilerTopography allows evaluating the effect of chromatin organization, histone modifications, transcription factor binding, DNA re…☆23Updated last month