QuickEd is a high-performance exact sequence alignment based on the bound-and-align paradigm.
☆28May 5, 2025Updated 9 months ago
Alternatives and similar repositories for QuickEd
Users that are interested in QuickEd are comparing it to the libraries listed below
Sorting:
- LMS algorithm for computing edit distance with SIMD optimizations☆11Mar 25, 2024Updated last year
- FMSI is a highly memory efficient exact k-mer set index based on masked superstrings and the masked Burrows-Wheeler transform☆23Nov 20, 2025Updated 3 months ago
- Gene copy number prediction from k-mer frequencies☆15Jul 29, 2024Updated last year
- rnalib: a python-based transcriptomics library☆11Jan 23, 2026Updated last month
- your friendly pangenome graph genotyper☆10Feb 6, 2023Updated 3 years ago
- General purpose utility related to GAF files☆29Jan 27, 2026Updated last month
- ViromeScan allows the user to explore and taxonomically characterize the virome from metagenomic reads, efficiently denoising samples fro…☆13Feb 13, 2023Updated 3 years ago
- A tool to detect structural variant☆17Mar 27, 2023Updated 2 years ago
- SeqOthello supports fast coverage query and containment query.☆12May 8, 2019Updated 6 years ago
- A toolkit for exploring regions of variation in pangenomes☆14Feb 14, 2026Updated 2 weeks ago
- Wavefront alignment algorithm (WFA) in Golang☆32Jul 26, 2025Updated 7 months ago
- ☆23Sep 9, 2025Updated 5 months ago
- A web-based, interactive pangenome visualization tool☆21Apr 10, 2023Updated 2 years ago
- Kmer Analysis of Pileups for Genotyping☆35Jan 30, 2026Updated 3 weeks ago
- Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…☆38Jun 23, 2023Updated 2 years ago
- An accurate aligner of long reads to a variation graph, based on co-linear chaining☆34May 23, 2025Updated 9 months ago
- Toolkit for VNTR genotyping and repeat-pan genome graph construction☆31Aug 18, 2025Updated 6 months ago
- SAMStat displays various properties of next-generation sequencing reads stored in SAM/BAM format.☆24Aug 3, 2023Updated 2 years ago
- MetaProFi is a bloom filter based tool for storing and querying sequence data for accurate identification of functionally relevant geneti…☆12Apr 14, 2022Updated 3 years ago
- A "Navie" Implementation of the Wavefront Algorithm For Sequence Alignment with Gap-Affine Scoring☆14Aug 7, 2023Updated 2 years ago
- WFA-lib: Wavefront alignment algorithm library v2☆209Feb 8, 2026Updated 2 weeks ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- expressions on VCFs☆91Apr 19, 2025Updated 10 months ago
- A Rust library providing fully dynamic sets of k-mers with high locality☆47Feb 12, 2026Updated 2 weeks ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 3 years ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated 6 months ago
- A minimal copy fastq and fasta reader built for parallel support and paired end processing☆42Jan 9, 2026Updated last month
- HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors☆30Aug 26, 2024Updated last year
- Long-read aligner to pangenome graphs☆29May 20, 2024Updated last year
- A novel method for sequence similarity estimation☆28Mar 23, 2024Updated last year
- Construct a Physical Map from Linked Reads☆18Apr 5, 2024Updated last year
- Chimera: A Versatile Metagenomic Classification Tool☆20Feb 1, 2026Updated 3 weeks ago
- ☆67Apr 9, 2024Updated last year
- ☆14May 12, 2023Updated 2 years ago
- MEMO: MEM-based pangenome indexing for k-mer queries☆20Jun 11, 2024Updated last year
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆135Updated this week
- Phasing reads with secondary alignments☆22Nov 30, 2024Updated last year
- Nextflow pipeline for genome annotation of protein-coding genes☆16Dec 21, 2023Updated 2 years ago
- Predict genic elements as splice sites, exons or genes, along eukaryotic DNA sequences☆18Jan 19, 2023Updated 3 years ago