Snakemake pipeline for benchmarking read mappers
☆16Dec 11, 2023Updated 2 years ago
Alternatives and similar repositories for mapping-benchmarking
Users that are interested in mapping-benchmarking are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Rust library for processing sequencing reads.☆25Sep 2, 2024Updated last year
- Rust bindings to the wavefront algorithm C implementation☆17Sep 20, 2022Updated 3 years ago
- A command line tool (in Kotlin/JVM) for intuitively visualizing BAM alignments. (Currently unmaintained)☆11Jan 7, 2024Updated 2 years ago
- ☆15Jul 17, 2019Updated 6 years ago
- ☆16Aug 8, 2025Updated 9 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Python language bindings for bwa☆12Mar 27, 2026Updated last month
- base-level dotplots from PAF alignments☆34Sep 18, 2025Updated 8 months ago
- convert reads from repeated measures of same piece of DNA into spaced matricies for deep learners.☆14Apr 21, 2023Updated 3 years ago
- ☆16Jan 10, 2022Updated 4 years ago
- Automated Detection and Qualification of Differential Methylation☆16Nov 21, 2023Updated 2 years ago
- Parallel Construction of Suffix Arrays in Rust☆26May 2, 2025Updated last year
- Improved version of the Oxford Bioinformatics paper template☆23Feb 4, 2026Updated 3 months ago
- Tool to flag foldback and chimeric artifacts in long-read sequence alignment files☆39Apr 28, 2026Updated 3 weeks ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 4 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)☆57Mar 4, 2024Updated 2 years ago
- QuickEd is a high-performance exact sequence alignment based on the bound-and-align paradigm.☆29May 5, 2025Updated last year
- ☆40Jan 14, 2026Updated 4 months ago
- Optimal distance lower bound k-mer sampling.☆12Jun 19, 2024Updated last year
- Simulation toolbox for structural variations.☆10May 30, 2019Updated 6 years ago
- Telomere-to-Telomere diploid Indian Genome☆15Mar 5, 2026Updated 2 months ago
- A SIMD-accelerated library to compute random minimizers☆43Apr 6, 2026Updated last month
- AStarix: Fast and Optimal Sequence-to-Graph Aligner☆74Dec 25, 2021Updated 4 years ago
- ☆17Apr 9, 2021Updated 5 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Minimalistic aligner which uses Minimap for input mapping locations and Edlib for fast bitvector alignment.☆11Jul 16, 2017Updated 8 years ago
- Structural variant pipeline☆18Jun 25, 2020Updated 5 years ago
- Work for the tree sequence inference paper.☆23Oct 19, 2020Updated 5 years ago
- WFA-lib: Wavefront alignment algorithm library v2☆214Mar 18, 2026Updated 2 months ago
- Clinical Variant Annotation Pipeline☆10Apr 21, 2020Updated 6 years ago
- Fast & accurate alignment of barcoded short-reads☆32Jun 29, 2023Updated 2 years ago
- ☆30Sep 11, 2025Updated 8 months ago
- A merged read deduplication tool capable to perform merged read deduplication on single end data.☆13Sep 4, 2024Updated last year
- ☆18Apr 18, 2026Updated last month
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash and UltraLogLog☆20Jan 22, 2026Updated 3 months ago
- ☆17Jan 15, 2025Updated last year
- Finding Maximal Exact Matches (MEMs) using a Sampled LCP Array☆10Mar 7, 2024Updated 2 years ago
- Python wrapper for wavefront alignment using WFA2-lib☆38Nov 19, 2024Updated last year
- SIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence or sequence-to-profile alignments using …☆140Jun 23, 2024Updated last year
- Simple library/pipeline to generate and handle Hi-C data.☆41May 11, 2026Updated last week
- Survival Analysis for Protein-Level TCGA Analysis☆12Nov 30, 2018Updated 7 years ago