lbcb-sci

raven

De novo genome assembler for long uncorrected reads

racon

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

herro

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).

graphmap2

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/10.1101/720458v1

RiNALMo

RiboNucleic Acid (RNA) Language Model

ra

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

GNNome

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

rockfish

I002C

Telomere-to-Telomere diploid Indian Genome

MetagenomicsBenchmark

ram

ScaRa

SCARA - scaffolding with long reads

roko

A deep learning consensus polisher

ratlesnake

Rockfish-old

Deep learning based method for detecting DNA base modifications

GNNs-Hamiltonian-cycles

Supplementary code for "Finding Hamiltonian cycles with graph neural networks"

heron-raven

Development of Raven - Heron branch

hifiasm

Hifiasm: a haplotype-resolved assembler for accurate Hifi reads

merlion

NeuralLayout

A GNN model that executes simplification algorithms used in the layout phase of de novo genome assembly process.

RNAseqEval

A tool for evaluating RNA seq mapping

T2T-assemblies

T2T assemblies of human and durian genomes

tarantula