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
☆26Updated last 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☆39Updated last year
- This is the Haplotypo repository☆22Updated last year
- ☆16Updated 11 months ago
- Run multiple programs to check if a VCF is usable☆11Updated 5 years ago
- Population-wide Deletion Calling☆35Updated 8 months ago
- ☆13Updated 3 years ago
- Genotyping of segregating mobile elements insertions☆19Updated 4 years ago
- Tools to gather evidence for structural variation via breakpoint detection.☆19Updated this week
- Structural variant pipeline☆17Updated 5 years ago
- Suite of tools for analysing off-target reads to find CNVs, homozygous regions, and shared haplotypes☆31Updated 4 months ago
- ☆12Updated 4 years ago
- Reducing reference bias using multiple population reference genomes☆34Updated last year
- Functions to compare a SV call sets against a truth set.☆30Updated 6 months ago
- A long-read analysis toolbox for cancer and population genomics☆23Updated 5 months ago
- Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.☆22Updated 6 years ago
- Viola is a flexible and powerful python package designed specifically for analysis of genomic structural variant (SV) signatures.☆26Updated last year
- Simultaneous multi-sample transcript assembler for RNA-seq data☆17Updated last year
- ☆14Updated 2 years ago
- Sample Contamination Estimate from VCF☆20Updated last year
- HAT is a set of tools for calling de novo variants from whole-genome sequencing data.☆24Updated last month
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Updated 3 years ago
- Pipeline for structural variant image curation and analysis.☆49Updated 4 years ago
- Single-pass probabilistic duplicate marking of alignments with a Bloom filter.☆23Updated 2 years ago
- add true-negative SVs from a population callset to a truth-set.☆15Updated 3 years ago
- Structural variant VCF annotation, duplicate removal and comparison☆34Updated 2 months ago
- Expedite large-scale identification of CNVs within predefined genomic regions. Online app available for those with GP2 Tier 2 Access.☆12Updated 6 months ago
- A python wrapper around SURVIVOR☆20Updated last year
- Structural Variant Prediction Viewer☆35Updated 8 years ago
- Detect and phase minor SNVs from long-read sequencing data☆14Updated 3 years ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆26Updated last year