isugifNF / GATK-flow
Nextflow implementation of the GATK HaplotypeCaller pipeline
☆13Updated 3 weeks ago
Alternatives and similar repositories for GATK-flow:
Users that are interested in GATK-flow are comparing it to the libraries listed below
- Integrative analysis of complex structural variants☆21Updated 4 years ago
- ☆16Updated this week
- Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes☆28Updated 9 months ago
- Filter and prioritize fusion calls☆20Updated 6 months ago
- Viola is a flexible and powerful python package designed specifically for analysis of genomic structural variant (SV) signatures.☆26Updated 8 months ago
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 6 years ago
- ☆22Updated 4 months ago
- Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data☆18Updated 2 weeks ago
- Pipeline for structural variant image curation and analysis.☆48Updated 3 years ago
- Specific Transposable Element Aligner (HERV-K)☆16Updated 5 years ago
- Third-generation fusion gene detection☆14Updated last year
- Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.☆18Updated 2 months ago
- Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer☆21Updated 4 years ago
- Python package and routines for merging VCF files☆29Updated 4 years ago
- Automated Detection and Qualification of Differential Methylation☆12Updated last year
- A set of tools to annotate VCF files with expression and readcount data☆29Updated last month
- Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA☆27Updated 10 months ago
- R API for browsing, analyzing, and manipulating reference-aligned genome graphs in a GenomicRanges framework☆40Updated this week
- a Shiny/R application to view and annotate copy number variations☆28Updated 2 years ago
- Plot CNV data with a genome viewer in R☆15Updated 8 years ago
- ☆23Updated 5 years ago
- v2.x of the microassembly based somatic variant caller☆20Updated 3 weeks ago
- Structural variant pipeline☆17Updated 4 years ago
- Structural variant (SV) analysis tools☆36Updated 9 months ago
- Population-wide Deletion Calling☆35Updated this week
- Structural Variation breakpoint discovery via adaptive learning☆15Updated last year
- Genotyping of segregating mobile elements insertions☆19Updated 3 years ago
- Location of public benchmarking; primarily final results☆18Updated 2 months ago
- Nextflow workflow for automatic repeat detection, classification and masking☆13Updated 7 years ago
- Reproducibility workflow for Gigante et al., 2018: Using long-read sequencing to detect imprinted DNA methylation☆23Updated 6 years ago