reiterlab / ctdna
Python package for cancer early detection based on a model of cancer evolution and circulating tumor DNA (ctDNA) shedding
☆10Updated 3 years ago
Related projects ⓘ
Alternatives and complementary repositories for ctdna
- Repository for RecallME-v.0.1 a variant calling pipelines benchmarker and optimizer☆13Updated 11 months ago
- ☆18Updated last month
- Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA☆25Updated 5 months ago
- Aggregation and analyses of rare CNVs across diseases☆14Updated last year
- Location of public benchmarking; primarily final results☆18Updated 2 years ago
- Structural variant VCF annotation, duplicate removal and comparison☆27Updated 2 months ago
- ☆21Updated 3 months ago
- Structural Variation breakpoint discovery via adaptive learning☆15Updated last year
- Correctly counting molecules using unique molecular identifiers (UMIs)☆9Updated 3 years ago
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 6 years ago
- Integrative analysis of complex structural variants☆21Updated 4 years ago
- Tools to gather evidence for structural variation via breakpoint detection.☆19Updated 3 weeks ago
- Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.☆28Updated 3 years ago
- Reconstructs complex variation using Bionano optical mapping data and breakpoint graph data☆16Updated last year
- Sample Contamination Estimate from VCF☆19Updated 2 weeks ago
- Interpretable prioritization of splice variants in diagnostic next-generation sequencing☆15Updated 6 months ago
- ☆14Updated last year
- VPOT - Variant Prioritisation Ordering Tool. VPOT is a Python tool written to allow prioritisation of variants in ANNOVAR annotated VCF f…☆10Updated 3 years ago
- ☆11Updated 7 months ago
- predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data☆26Updated last year
- Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer☆21Updated 3 years ago
- Deep learning-based structural variant filtering method☆35Updated last year
- ☆15Updated 7 months ago
- Viola is a flexible and powerful python package designed specifically for analysis of genomic structural variant (SV) signatures.☆26Updated 3 months ago
- Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers☆15Updated 6 years ago
- HAT is a set of tools for calling de novo variants from whole-genome sequencing data.☆23Updated 8 months ago
- Workflow for Sequenza, cellularity and ploidy☆18Updated 4 months ago
- A tool for sample swap identification in high throughput sequencing studies☆10Updated 2 years ago
- A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.☆17Updated 3 months ago
- ☆13Updated 4 months ago