Standalone C library for assembling Illumina short reads in small regions
☆72Dec 15, 2022Updated 3 years ago
Alternatives and similar repositories for fermi-lite
Users that are interested in fermi-lite are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- De novo assembly based variant calling pipeline for Illumina short reads☆110Nov 30, 2020Updated 5 years ago
- Genome inference from a population reference graph☆96Apr 1, 2025Updated last year
- a string to graph aligner☆41Jul 5, 2016Updated 10 years ago
- EXPERIMENTAL implementation of side graph☆10Apr 16, 2015Updated 11 years ago
- C++ htslib/bwa-mem/fermi interface for interrogating sequence data☆139Apr 27, 2026Updated 6 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- ☆25May 21, 2021Updated 5 years ago
- Reference-free variant discovery in large eukaryotic genomes☆42Jul 13, 2021Updated 5 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆41Nov 27, 2025Updated 11 months ago
- Fast but inaccurate adapter trimmer for Illumina reads☆16Mar 17, 2022Updated 4 years ago
- Classify sequencing reads using MinHash.☆47Apr 6, 2020Updated 6 years ago
- gap opening realigner for BAM data streams☆18Oct 17, 2012Updated 14 years ago
- Incremental construction of FM-index for DNA sequences☆72Jun 12, 2024Updated 2 years ago
- Scaffolding genomes using synthetic long read clouds☆20Oct 11, 2016Updated 10 years ago
- Hidden Markov Model based Copy number caller☆20Jul 18, 2026Updated 3 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆36Aug 4, 2021Updated 5 years ago
- This repo is deprecated. Please use gfatools instead.☆15Aug 17, 2018Updated 8 years ago
- sort genomic data☆36Oct 21, 2026Updated last week
- High-performance error correction for Illumina resequencing data☆75May 31, 2016Updated 10 years ago
- efficient alignment of strings to partially ordered string graphs☆33Apr 22, 2026Updated 6 months ago
- reference free variant assembly☆34Jul 14, 2023Updated 3 years ago
- SUPBUB is a tool that, in linear time, finds out superbubbles(special graph-structures) in a directed graph.☆12Sep 19, 2019Updated 7 years ago
- ☆11Dec 18, 2025Updated 10 months ago
- Simple matching of HTS samples based on HLA typing☆14Jan 4, 2017Updated 9 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities☆25Oct 31, 2019Updated 7 years ago
- Histosketching Using Little Kmers☆56May 25, 2023Updated 3 years ago
- ☆36Aug 13, 2020Updated 6 years ago
- ☆24Apr 2, 2021Updated 5 years ago
- ☆17Sep 24, 2013Updated 13 years ago
- simple jobs submission via command-line for AWS batch☆80May 21, 2019Updated 7 years ago
- ☆69Jun 21, 2022Updated 4 years ago
- Stupid Simple Structural Variant View☆26Nov 21, 2016Updated 9 years ago
- Toolkit for extracting SVs from long sequences and benchmarking variant callers☆12Jan 10, 2017Updated 9 years ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Structural variation and indel detection by local assembly☆258Aug 19, 2026Updated 2 months ago
- kaamer - protein identification based on amino acid kmers☆11Mar 7, 2023Updated 3 years ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆46Jan 18, 2019Updated 7 years ago
- full taxonomer cython repository☆22Dec 1, 2019Updated 6 years ago
- Global alignment and alignment extension☆144Jun 27, 2023Updated 3 years ago
- Basic, no assumptions, multi-pileup☆24Mar 26, 2014Updated 12 years ago
- Fast multi-line FASTA/Q reader in several programming languages☆178Jun 6, 2021Updated 5 years ago