Reads simulator
☆283Sep 3, 2021Updated 4 years ago
Alternatives and similar repositories for wgsim
Users that are interested in wgsim are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆354Jul 19, 2025Updated 8 months ago
- Whole Genome Simulator for Next-Generation Sequencing☆103Dec 27, 2025Updated 2 months ago
- The next version of bwa-mem☆824Oct 15, 2025Updated 5 months ago
- A fast approximate aligner for long DNA sequences☆287Oct 11, 2024Updated last year
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,715Mar 22, 2025Updated last year
- lumpy: a general probabilistic framework for structural variant discovery☆339Feb 22, 2026Updated last month
- C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings☆669Updated this week
- C++ API & command-line toolkit for working with BAM data☆429May 18, 2025Updated 10 months ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,144Feb 13, 2026Updated last month
- An illumina paired-end and mate-pair short read simulator. This project attempts to model as many of the quirks that exist in Illumina da…☆68Sep 10, 2014Updated 11 years ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆308Mar 18, 2024Updated 2 years ago
- Tools for working with SAM/BAM data☆606Dec 22, 2024Updated last year
- A Tool for integrated Quality Control and Preprocessing on FASTQ or BAM/CRAM files☆114Mar 28, 2024Updated last year
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆334May 27, 2025Updated 9 months ago
- Structural variation and indel detection by local assembly☆254Mar 17, 2026Updated last week
- Reference-based variant calling pipeline for a pair of phased haplotype assemblies☆108Jun 6, 2021Updated 4 years ago
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆831Feb 10, 2026Updated last month
- tools for adding mutations to existing .bam files, used for testing mutation callers☆247Oct 18, 2024Updated last year
- SVsim: a tool that generates synthetic Structural Variant calls as benchmarks to test/evaluate SV calling pipelines.☆18Dec 4, 2017Updated 8 years ago
- Bayesian genotyper for structural variants☆136Mar 6, 2021Updated 5 years ago
- C library for high-throughput sequencing data formats☆911Updated this week
- BWK awk modified for biological data☆638Aug 11, 2022Updated 3 years ago
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆508Feb 26, 2026Updated 3 weeks ago
- Toolkit for processing sequences in FASTA/Q formats☆1,531Jun 1, 2025Updated 9 months ago
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆667Dec 3, 2022Updated 3 years ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…☆297May 9, 2024Updated last year
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,308Updated this week
- structural variant calling and genotyping with existing tools, but, smoothly.☆264Jun 17, 2024Updated last year
- Simulate short-reads datasets using probabilistic models☆11Jun 1, 2013Updated 12 years ago
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆864Feb 8, 2026Updated last month
- SeqAn's official repository.☆500Mar 18, 2026Updated last week
- reference-guided aligner for next-generation sequencing technologies☆57Sep 20, 2016Updated 9 years ago
- DRAGEN open-source mapper☆187Sep 8, 2023Updated 2 years ago
- Fast multi-line FASTA/Q reader in several programming languages☆177Jun 6, 2021Updated 4 years ago
- Toolset for SV simulation, comparison and filtering☆413Dec 1, 2023Updated 2 years ago
- Cutadapt removes adapter sequences from sequencing reads☆575Mar 17, 2026Updated last week
- samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.☆238Aug 11, 2021Updated 4 years ago
- PBSIM3: a simulator for all types of PacBio and ONT long reads☆101Apr 22, 2025Updated 11 months ago
- Structural variation caller using third generation sequencing☆639Mar 10, 2026Updated 2 weeks ago