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
Sorting:
- 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 12 years ago
- Module to determine where repeats are and make soft-masks of said☆10Mar 14, 2024Updated last year
- Tool (experimental) to compute layout from overlaps with spectral algorithm☆11Nov 28, 2017Updated 8 years ago
- A succinct colored dBG representation☆12Sep 11, 2018Updated 7 years ago
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 5 years ago
- Simple and fast MinHash implementation in C with Python wrapper☆13Jul 24, 2025Updated 7 months ago
- Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.☆40Jul 15, 2019Updated 6 years ago
- Practical Dynamic de Bruijn Graphs☆18Oct 1, 2020Updated 5 years ago
- de Bruijn CompAction in Low Memory☆23Jan 15, 2016Updated 10 years ago
- Pan-genome Seed Index☆20Mar 12, 2025Updated 11 months ago
- Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.☆22Feb 10, 2019Updated 7 years ago
- SIMD-parallel BLAST X-drop DP on sequence graphs☆24May 30, 2024Updated last year
- LogLog space version of MinHash by combining ideas from HyperLogLog and b-bit MinHash☆57Feb 19, 2020Updated 6 years ago
- Indel-aware consensus for aligned BAM☆21Aug 16, 2025Updated 6 months ago
- A python toolkit for building and querying multi-string BWTs☆27Mar 2, 2017Updated 8 years ago
- Library of sketching functions used by PopPUNK☆31Mar 31, 2025Updated 11 months ago
- Code associated with: AutoStepfinder: A fast and automated step detection method for single-molecule analysis Luuk Loeff, Jacob W J Kerss…☆10Jun 12, 2024Updated last year
- TULIP - The Uncorrected Long read Itegration Pipeline☆27Jan 15, 2018Updated 8 years ago
- Mantis: A Fast, Small, and Exact Large-Scale Sequence-Search Index☆86Mar 7, 2024Updated last year
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Aug 4, 2021Updated 4 years ago
- Scripts for implementing read until and other examples.☆31Feb 25, 2020Updated 6 years ago
- All design files and scripts necessary for the construction and use of the optoPlate-96☆11Apr 28, 2022Updated 3 years ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆71Nov 13, 2025Updated 3 months ago
- Machine learning workshop presented at GLBIO 2016☆11May 17, 2016Updated 9 years ago
- Training for the Olympiad in Informatics, Liceo Scientifico Galilei, Trento, 2018/2019 and 2019/2020☆10Oct 14, 2025Updated 4 months ago
- Code for improving the performance of sequence-to-expression models for making individual-specific gene expression predictions by fine-tu…☆15Dec 12, 2025Updated 2 months ago
- Squeakr: An Exact and Approximate k -mer Counting System☆86Feb 23, 2025Updated last year
- Implicit Interval Tree with Interpolation Index☆42Jul 13, 2022Updated 3 years ago
- Extremely fast inplace radix sort☆43Jan 31, 2020Updated 6 years ago
- Bloom-filter based minimal perfect hash function library☆276Jul 16, 2025Updated 7 months ago
- ☆17Jul 5, 2020Updated 5 years ago
- ACM UMAP2020 Hands-on Tutorial on Data and Algorithmic Bias in Recommender Systems☆10May 23, 2021Updated 4 years ago
- SUPBUB is a tool that, in linear time, finds out superbubbles(special graph-structures) in a directed graph.☆12Sep 19, 2019Updated 6 years ago
- Code for Shipman et al. 2017☆13Jul 12, 2017Updated 8 years ago
- xCell 2.0: Robust Cell Type Enrichment Analysis☆13Dec 11, 2025Updated 2 months ago
- Implementation of various equivariant models in JAX☆12Apr 12, 2024Updated last year
- A hash map using the BooPHF perfect hash function☆13Sep 25, 2016Updated 9 years ago
- ☆13Nov 18, 2023Updated 2 years ago
- ☆10Feb 28, 2018Updated 8 years ago