nf-core/oncoanalyser

Personal Cancer Genome Reporter (PCGR)

RNA-seq analysis pipeline for detection of gene-fusions

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing

Analysis pipeline for cancer sequencing data

Various algorithms for analysing genomics data

Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer

Analysis pipelines for genomic sequencing data

DeepCatch: performance-weighted multi-modal fusion for ultra-early cfDNA cancer detection. Fragmentomics, methylation, sequence.

A quickstart tool for AmpliconArchitect. Enables all steps (alignment, CNV calling, seed interval detection) prior to running AmpliconArchitect, and invokes AmpliconClassifier