longcallR is a tool for SNP calling, haplotype phasing, and allele-specific analysis with long-read RNA-seq data.

A genome completeness evaluation tool based on miniprot

A Rust reimplementation of the core FastQTL cis-QTL mapping logic.

A long-read RNA-seq internal priming detection and filtering tool

longcallR_nn is a variant caller specifically designed for long-read RNA-seq data, utilizing a ResNet50 model.

BlockPolish: accurate polishing of long-read assembly via block divide-and-conquer

A deep learning-based SNP calling method to identify SNPs based on low-coverage Nanopore sequencing reads.

BlockPolish feature generation module (BPFGM) is used to divide the draft assembly into blocks from reads-to-assembly alignment and generate feature matrices used for predicting consensus sequence.

NeuralPolish: a novel Nanopore polishing method based on alignment matrix construction and orthogonal Bi-GRU Networks.