nf-cmgg / structuralLinks
A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region expansions (RREs) from short DNA reads
☆23Updated this week
Alternatives and similar repositories for structural
Users that are interested in structural are comparing it to the libraries listed below
Sorting:
- Structural variant (SV) analysis tools☆36Updated last year
- This is the Haplotypo repository☆20Updated last year
- ☆16Updated 6 months ago
- Population-wide Deletion Calling☆35Updated 3 months ago
- ☆13Updated 3 years ago
- Sample Contamination Estimate from VCF☆20Updated 8 months ago
- Phase reads, assemble haplotypes and detect SVs☆19Updated 4 years ago
- Tools for merging Tandem Repeat VCF files☆31Updated 2 months ago
- Run multiple programs to check if a VCF is usable☆11Updated 5 years ago
- add true-negative SVs from a population callset to a truth-set.☆15Updated 3 years ago
- Functions to compare a SV call sets against a truth set.☆30Updated last month
- ☆12Updated 3 years ago
- Genotyping of segregating mobile elements insertions☆19Updated 3 years ago
- Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes☆29Updated last year
- Structural variant pipeline☆17Updated 5 years ago
- Hidden Markov Model based Copy number caller☆20Updated 8 months ago
- HAT is a set of tools for calling de novo variants from whole-genome sequencing data.☆23Updated last year
- ☆14Updated last year
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Updated 2 years ago
- A tool to extract LOH blocks from VCF, BAM and FASTA data☆23Updated 10 months ago
- A long-read analysis toolbox for cancer and population genomics☆23Updated 2 weeks ago
- Large scale ancestry inference from PCA data☆23Updated 2 years ago
- Pipeline for structural variant image curation and analysis.☆48Updated 3 years ago
- Tools to gather evidence for structural variation via breakpoint detection.☆19Updated 3 months ago
- Simultaneous multi-sample transcript assembler for RNA-seq data☆17Updated 7 months ago
- A python wrapper around SURVIVOR☆20Updated last year
- RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes☆17Updated 5 years ago
- Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA☆29Updated last year
- Immuological gene typing and annotation for genome assembly☆37Updated 4 months ago
- SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel☆25Updated 2 months ago