mdelcorvo / TOSCALinks
Snakemake workflow for somatic mutation detection without matched normal samples
☆13Updated 2 years ago
Alternatives and similar repositories for TOSCA
Users that are interested in TOSCA are comparing it to the libraries listed below
Sorting:
- A pipeline for identifying indel derived neoantigens using RNA-Seq data☆30Updated 3 years ago
- Main repository for Drews et al. (Nature, 2022)☆42Updated 2 years ago
- An R package to time somatic mutations☆65Updated 5 years ago
- This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …☆36Updated 4 months ago
- Clinical interpretation of somatic mutations in cancer☆50Updated 11 months ago
- MutSig2CV from Lawrence et al. 2014☆33Updated 5 years ago
- ☆38Updated 5 years ago
- Homologous recombination deficiency in TCGA PanCancer Atlas☆28Updated 5 years ago
- Genomic Identification of Significant Targets in Cancer (GISTIC), version 2☆53Updated 3 years ago
- Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs☆32Updated 2 years ago
- Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes☆44Updated 4 years ago
- A quickstart tool for AmpliconArchitect. Enables all steps (alignment, CNV calling, seed interval detection) prior to running AmpliconArc…☆76Updated last week
- EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.☆62Updated last week
- All-FIT - Allele-Frequency-based Imputation of Tumor Purity☆18Updated 6 years ago
- Mutational signature analysis for low statistics SNV data☆64Updated last year
- Comprehensive analysis of small RNA sequencing data☆34Updated 8 months ago
- Tumor Mutational Burden☆63Updated 5 months ago
- MSIsensor-RNA: Microsatellite instability detection using RNA sequencing data☆23Updated 11 months ago
- RNA editing tests☆17Updated 5 years ago
- ☆27Updated 2 years ago
- Code repo for all analysis done for the 'Pan-cancer whole genome comparison of primary and metastatic solid tumors' study.☆18Updated 2 years ago
- A flexible framework for nucleosome profiling of cell-free DNA☆28Updated 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
- Spatial Computational Inference of MEtastatic Timing (SCIMET)☆14Updated 6 years ago
- cfDNApipe: A comprehensive quality control and analysis pipeline for cell-free DNA high-throughput sequencing data☆75Updated 3 years ago
- GLASS consortium☆42Updated 5 years ago
- ☆119Updated 2 years ago
- A statistical tool to detect differential alternative splicing events using single-cell RNA-seq☆22Updated 2 years ago
- ☆27Updated 5 years ago
- Collection of fragmentomic analysis scripts☆12Updated last year