Code accompanying the publication for compressed graph annotation
☆13Feb 14, 2019Updated 7 years ago
Alternatives and similar repositories for graph_annotation
Users that are interested in graph_annotation 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 Bruijn CompAction in Low Memory☆23Jan 15, 2016Updated 10 years ago
- Web based DNA sequence editing and analysis tool☆13Sep 27, 2021Updated 5 years ago
- Module to determine where repeats are and make soft-masks of said☆10Mar 14, 2024Updated 2 years ago
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 6 years ago
- Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.☆40Jul 15, 2019Updated 7 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Fake genomes, fake sequencing, real insights.☆13Sep 4, 2021Updated 5 years ago
- BlastGraph is a new tool for computing intensive approximate pattern matching in a sequence graph or a de-Bruijn graph. Given an oriented…☆12May 9, 2013Updated 13 years ago
- Simple and fast MinHash implementation in C with Python wrapper☆13Jul 24, 2025Updated last year
- Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.☆22Feb 10, 2019Updated 7 years ago
- A succinct colored dBG representation☆12Sep 11, 2018Updated 8 years ago
- Tool (experimental) to compute layout from overlaps with spectral algorithm☆11Nov 28, 2017Updated 8 years ago
- semi-reference-based short read compression☆11Mar 5, 2019Updated 7 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24Sep 3, 2026Updated last month
- Practical Dynamic de Bruijn Graphs☆18Oct 1, 2020Updated 6 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- LogLog space version of MinHash by combining ideas from HyperLogLog and b-bit MinHash☆57Feb 19, 2020Updated 6 years ago
- Pan-genome Seed Index☆20Jul 3, 2026Updated 3 months ago
- Latent Dirichlet allocation (LDA) with bumping variational inference.☆12Jun 8, 2015Updated 11 years ago
- Adaptive semi-global banded alignment on string graphs☆66May 4, 2018Updated 8 years ago
- Header-only, gzread-like reader for gzip, bz2, and xz.☆11Aug 8, 2018Updated 8 years ago
- Indel-aware consensus for aligned BAM☆22Aug 16, 2025Updated last year
- Python implementation of the BCALM algorithm☆15Dec 2, 2016Updated 9 years ago
- ☆16Apr 25, 2017Updated 9 years ago
- Library of sketching functions used by PopPUNK☆29Jun 8, 2026Updated 4 months 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.
- ☆15Mar 7, 2016Updated 10 years ago
- TULIP - The Uncorrected Long read Itegration Pipeline☆27Jan 15, 2018Updated 8 years ago
- De novo genome assembly and multisample variant calling☆113Mar 28, 2019Updated 7 years ago
- Divide and Conquer BLAST: using grid engines to accelerate NCBI-BLAST+ and other sequence analysis tools☆11Apr 26, 2020Updated 6 years ago
- Bloocoo is a k-mer spectrum-based read error corrector, designed to correct large datasets with a very low memory footprint.☆12May 22, 2017Updated 9 years ago
- Python CLI for alignment-free genomics.☆13May 25, 2026Updated 5 months ago
- A python toolkit for building and querying multi-string BWTs☆27Mar 2, 2017Updated 9 years ago
- Cython bindings and Python interface to Jess, a 3D template matching software for protein structures. Now 10x faster!☆12Aug 25, 2026Updated 2 months ago
- Argo: species-resolved profiling of antibiotic resistance genes in complex metagenomes through long-read overlapping☆17Aug 24, 2026Updated 2 months 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.
- Bloom-filter based minimal perfect hash function library☆281Jul 16, 2025Updated last year
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index☆88Mar 7, 2024Updated 2 years ago
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆227Aug 11, 2026Updated 2 months ago
- Spartns is a SPARse TeNSor representation library. This project moved to Gitlab☆10Apr 19, 2018Updated 8 years ago
- Programming with R for Reproducible Research☆22Mar 24, 2026Updated 7 months ago
- Source for course materials at http://ged.msu.edu/angus/☆11Jun 4, 2014Updated 12 years ago