Structural variant caller for low-depth long-read sequencing data
☆47Feb 5, 2026Updated last month
Alternatives and similar repositories for nanovar
Users that are interested in nanovar are comparing it to the libraries listed below
Sorting:
- RNAseq analysis with Hisat2, stringtie, and ballgown☆17Aug 9, 2019Updated 6 years ago
- Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data☆115Oct 25, 2021Updated 4 years ago
- Updated figures for "A benchmarking of WGS-based structural variant callers" paper☆27Apr 3, 2022Updated 3 years ago
- Archived version 1.0.2☆16Nov 25, 2019Updated 6 years ago
- A tool to detect structural variant☆17Mar 27, 2023Updated 2 years ago
- Variant calling tool for long-read sequencing data☆117Mar 19, 2025Updated 11 months ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 5 years ago
- Ultra-fast, high-performing structural variation (SV) detector☆24Apr 26, 2023Updated 2 years ago
- SV genotyping with long reads☆40Jul 3, 2023Updated 2 years ago
- Analysis and figure generation code for the ABRF NGS Phase II Study on DNA-seq reproducibility☆18Aug 5, 2021Updated 4 years ago
- Toolkit for calling structural variants using short or long reads☆115Feb 11, 2026Updated 3 weeks ago
- Toy files and training material to introduce Linux to molecular biologists☆22Jul 21, 2023Updated 2 years ago
- Toolkit for VNTR genotyping and repeat-pan genome graph construction☆31Aug 18, 2025Updated 6 months ago
- A barcode demultiplexer for Oxford Nanopore long-read amplicon sequencing data☆10Nov 27, 2024Updated last year
- Tools for the analysis of structural variation in genomes☆81Feb 23, 2026Updated last week
- Variant call adjudication☆16Jun 13, 2024Updated last year
- ☆123Feb 22, 2026Updated last week
- a hidden Markov model to infer simple repeats from genome sequences☆37Feb 19, 2021Updated 5 years ago
- Methylation Phasing for Nanopore Sequencing☆49Mar 5, 2023Updated 3 years ago
- nPoRe: n-Polymer Realigner for improved pileup-based variant calling☆18Jul 11, 2022Updated 3 years ago
- CNV calling algorithm for detection of homozygous and hemizygous deletions from whole exome sequencing data☆12Nov 9, 2025Updated 3 months ago
- De novo lncRNA discovery pipeline, re-write of PLAR in shell and awk☆10Aug 2, 2023Updated 2 years ago
- easy_sbatch - Batch submitting Slurm jobs with script templates☆16Dec 28, 2021Updated 4 years ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Aug 24, 2022Updated 3 years ago
- A set of tools to annotate VCF files with expression and readcount data☆30Jan 30, 2026Updated last month
- Tandem repeat genotyping with long reads☆35Sep 23, 2025Updated 5 months ago
- diploid SNV caller for error-prone reads☆206Apr 26, 2024Updated last year
- Structural variant caller☆55Dec 8, 2021Updated 4 years ago
- Long read based human genomic structural variation detection with cuteSV☆277Sep 30, 2025Updated 5 months ago
- Read-based phasing of genomic variants, also called haplotype assembly☆406Dec 31, 2025Updated 2 months ago
- Tandem repeat expansion detection or genotyping from long-read alignments☆145Nov 24, 2025Updated 3 months ago
- Structural variant toolkit for VCFs☆397Jan 23, 2026Updated last month
- Annotation and Ranking of Structural Variation☆287Updated this week
- Hidden Markov Model based Copy number caller☆20Dec 9, 2025Updated 2 months ago
- Code and custom scripts relevant to gnomAD-SV (Collins*, Brand*, et al., 2020)☆37Jun 19, 2020Updated 5 years ago
- ☆15Aug 22, 2023Updated 2 years ago
- SARS-CoV-2 Deep Sequencing☆14Apr 22, 2020Updated 5 years ago
- ☆13Jan 23, 2020Updated 6 years ago
- dv-trio provides a pipeline to call variants for a trio (father-mother-child) using DeepVariants [1]. Genomic Variant Calling Files (gVCF…☆11Feb 3, 2021Updated 5 years ago