GooglingTheCancerGenome / sv-callersLinks
Snakemake-based workflow for detecting structural variants in genomic data
☆80Updated 9 months ago
Alternatives and similar repositories for sv-callers
Users that are interested in sv-callers are comparing it to the libraries listed below
Sorting:
- ENCODE long read RNA-seq pipeline☆51Updated 2 years ago
- Tip and tricks for BAM files☆86Updated 7 years ago
- Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data☆75Updated last year
- EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2☆64Updated last year
- BigWig and BAM utilities☆99Updated last year
- ☆72Updated 2 years ago
- SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …☆51Updated last month
- Runs a combination of tools to generate structural variant calls on whole-genome sequencing data☆48Updated 5 years ago
- MIP based joint inference of copy number and rearrangement state in cancer whole genome sequence data.☆59Updated 8 months ago
- Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer☆56Updated this week
- A Python library to visualize and analyze long-read transcriptomes☆63Updated 7 months ago
- ClairS-TO - a deep-learning method for tumor-only somatic variant calling☆75Updated 3 weeks ago
- phasing and Allele Specific Expression from RNA-seq☆117Updated last year
- Burden testing against public controls☆50Updated last year
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆142Updated 3 months ago
- fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector☆22Updated 2 months ago
- Tumor Mutational Burden☆63Updated 4 months ago
- A comprehensive cancer DNA/RNA analysis and reporting pipeline☆97Updated this week
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆98Updated 3 years ago
- QDNAseq package for Bioconductor☆53Updated last year
- A suite of tools for detecting expansions of short tandem repeats☆83Updated 2 years ago
- ⛏ HLA predictions from NGS shotgun data☆55Updated 6 months ago
- TAD calling, phase imputation, 3D modeling and more for diploid single-cell Hi-C (Dip-C) and general Hi-C☆113Updated 4 years ago
- ☆49Updated 2 years ago
- Relevant papers for CNV and SV approaches☆94Updated last year
- R package designed to simplify structural variant analysis☆73Updated 3 years ago
- SingleCell Nanopore sequencing data analysis☆62Updated 6 months ago
- Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools☆82Updated 4 years ago
- A software for calculating telomere length☆72Updated 7 years ago
- Somatic structural variant caller for long-read data☆85Updated 3 weeks ago