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@lbcb-sci

Šikić lab

A computational group with a focus on the development of new algorithms and AI models for the analysis of DNA and RNA sequencing data and biomolecular strucures

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  1. racon racon Public

    Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads

    C++ 219 34

  2. raven raven Public

    De novo genome assembler for long uncorrected reads

    C++ 214 20

  3. herro herro Public

    HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).

    Rust 207 13

  4. RiNALMo RiNALMo Public

    RiboNucleic Acid (RNA) Language Model

    Python 92 17

  5. graphmap2 graphmap2 Public

    Forked from isovic/graphmap

    GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/ncomms11307.html https://www.biorxiv.org/content/10.1101/7204…

    C++ 67 6

  6. ra ra Public

    Forked from rvaser/ra

    Assembler for raw de novo genome assembly of long uncorrected reads.

    Python 37 4

Repositories

Showing 10 of 26 repositories
  • herro Public

    HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).

    lbcb-sci/herro’s past year of commit activity
    Rust 207 13 38 7 Updated Apr 4, 2025
  • MADRe Public

    Strain-level metagenomic classification with Metagenome Assembly driven Database Reduction approach

    lbcb-sci/MADRe’s past year of commit activity
    Python 1 0 0 0 Updated Apr 1, 2025
  • I002C Public

    Telomere-to-Telomere diploid Indian Genome

    lbcb-sci/I002C’s past year of commit activity
    7 0 0 0 Updated Mar 28, 2025
  • metaxa Public
    lbcb-sci/metaxa’s past year of commit activity
    Python 0 GPL-3.0 0 0 0 Updated Mar 25, 2025
  • RiNALMo Public

    RiboNucleic Acid (RNA) Language Model

    lbcb-sci/RiNALMo’s past year of commit activity
    Python 92 Apache-2.0 17 2 0 Updated Mar 24, 2025
  • BadRead-Meta-Fork Public

    BeadRead fork for metagenomics classification

    lbcb-sci/BadRead-Meta-Fork’s past year of commit activity
    Python 0 GPL-3.0 0 0 0 Updated Mar 20, 2025
  • GNNome Public

    A framework for training graph neural networks to untangle assembly graphs obtained from OLC-based de novo genome assemblers.

    lbcb-sci/GNNome’s past year of commit activity
    Python 34 BSD-3-Clause 4 1 0 Updated Mar 11, 2025
  • rockfish Public
    lbcb-sci/rockfish’s past year of commit activity
    Python 10 MIT 3 5 0 Updated Nov 18, 2024
  • racon Public

    Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads

    lbcb-sci/racon’s past year of commit activity
    C++ 219 MIT 34 23 4 Updated Dec 29, 2023
  • raven Public

    De novo genome assembler for long uncorrected reads

    lbcb-sci/raven’s past year of commit activity
    C++ 214 MIT 20 27 2 Updated Nov 15, 2023
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