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
- ☆14Updated 7 months ago
- Viola is a flexible and powerful python package designed specifically for analysis of genomic structural variant (SV) signatures.☆26Updated 6 months ago
- ☆21Updated 2 months ago
- Nextflow workflow for automatic repeat detection, classification and masking☆13Updated 7 years ago
- ☆11Updated 4 months ago
- novoBreak: local assembly for breakpoint detection in cancer genomes☆26Updated 6 years ago
- Reconstruction of focal amplifications with long reads☆18Updated this week
- A set of tools to annotate VCF files with expression and readcount data☆29Updated 5 months ago
- Filter and prioritize fusion calls☆20Updated 4 months ago
- ☆21Updated 8 months ago
- Exhaustive capture of biological variation in RNA-seq data through k-mer decomposition.☆15Updated 6 years ago
- A command line tool to compute mapping statistics from a BAM file☆23Updated 2 years ago
- ☆23Updated 5 years ago
- Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes☆27Updated 7 months ago
- structure detection program☆17Updated 3 months ago
- Genotyping of segregating mobile elements insertions☆19Updated 3 years ago
- Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model☆27Updated last year
- VisCap is an open flexible, software program targeted to clinical laboratories for inference and visualization of germline copy number va…☆22Updated 5 years ago
- Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA☆27Updated 8 months ago
- Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data☆18Updated 2 months ago
- interactive plots for differential expression analysis☆29Updated this week
- Adapters for trimming☆30Updated 6 years ago
- Pipeline for structural variant image curation and analysis.☆48Updated 3 years ago
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆17Updated 4 years ago
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Updated 2 years ago
- Two pass alignment for long reads☆21Updated 3 years ago
- Population-wide Deletion Calling☆35Updated 5 months ago
- Third-generation fusion gene detection☆14Updated last year
- Structural variant pipeline☆17Updated 4 years ago