genotyping by Mapping-free ALternate-allele detection of known VAriants
☆10Mar 6, 2023Updated 3 years ago
Alternatives and similar repositories for malva
Users that are interested in malva are comparing it to the libraries listed below
Sorting:
- Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.☆22Feb 10, 2019Updated 7 years ago
- Ultra-efficient mapping-free structural variation genotyper☆20Jul 28, 2021Updated 4 years ago
- Code for building and testing variant ranking strategies☆17Aug 22, 2025Updated 6 months ago
- Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.☆15Dec 16, 2019Updated 6 years ago
- A transposition caller.☆12Oct 5, 2023Updated 2 years ago
- A pipeline for scaffolding a genome assembly using Hi-C☆13Nov 24, 2022Updated 3 years ago
- MapCaller – An efficient and versatile approach for short-read alignment and variant detection in high-throughput sequenced genomes☆30Feb 1, 2021Updated 5 years ago
- Parallel Sequence to Graph Alignment☆36Nov 26, 2022Updated 3 years ago
- Alignment-free genotyper for SNPs and short indels, implemented in Python.☆54Mar 7, 2025Updated last year
- ☆14May 12, 2023Updated 2 years ago
- An innovative GWAS procedure for studies on germplasm population and plant breeding☆14Nov 16, 2020Updated 5 years ago
- A fast seed-embed-extend based sequence mapper and aligner☆23Aug 28, 2024Updated last year
- modular k-mer count matrix and Bloom filter construction for large read collections☆86Dec 15, 2025Updated 3 months ago
- ☆10Jun 9, 2020Updated 5 years ago
- C++ library for analysing and storing large-scale cohorts of sequence variant data☆17Aug 27, 2019Updated 6 years ago
- Lift-over alignments from variant-aware references☆34Mar 4, 2023Updated 3 years ago
- URMAP ultra-fast read mapper☆38Jun 15, 2020Updated 5 years ago
- Somatic (mosaic) SNV caller for 10X Genomics data using random forest classification and feature-based filters☆23Apr 1, 2019Updated 6 years ago
- Non-parametric structural variant genotyper☆15Nov 18, 2021Updated 4 years ago
- RabbitMash: an efficient highly optimized implementation of Mash.☆20Oct 28, 2023Updated 2 years ago
- ☆16Aug 8, 2025Updated 7 months ago
- TreeBeST: Tree Building guided by Species Tree☆15Feb 17, 2011Updated 15 years ago
- ♥ Essential Functions for DNA Manipulation☆20Jun 15, 2025Updated 9 months ago
- A tool for detecting CNVs from WGS data☆11Jul 9, 2020Updated 5 years ago
- extract SV signal from a BAM☆11Jul 26, 2018Updated 7 years ago
- ☆24Aug 25, 2025Updated 6 months ago
- building a human pangenome from the HPRCy1v2 genbank accessioned assemblies☆15Feb 13, 2023Updated 3 years ago
- efficient alignment of strings to partially ordered string graphs☆33Jan 31, 2022Updated 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
- NASQAR: A web-based platform for High-throughput sequencing data analysis and visualization☆32Apr 19, 2020Updated 5 years ago
- Construct and Analyze the North American Vitis pangenome☆29Aug 19, 2025Updated 7 months ago
- LDkit: a parallel computing toolkit for linkage disequilibrium analysis☆19Sep 4, 2020Updated 5 years ago
- INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search☆15Dec 14, 2022Updated 3 years ago
- Header-only, gzread-like reader for gzip, bz2, and xz.☆11Aug 8, 2018Updated 7 years ago
- Lossless VCF compression☆21Mar 4, 2022Updated 4 years ago
- Benchmark structural variant calls against a reference set☆18Jan 26, 2026Updated last month
- ☆21Sep 22, 2022Updated 3 years ago
- ☆15Jan 19, 2018Updated 8 years ago
- Visualisation and prioritisation of genomic variants from human exome sequencing projects☆13Apr 23, 2019Updated 6 years ago