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The first deep learning based Nanopore simulator which can simulate the process of Nanopore sequencing.
simON-reads ("Simulate Oxford Nanopore Reads") is a simple yet powerful tool to generate fastq files containing MiniON-like long reads
NanoSim-H: a simulator of Oxford Nanopore reads; a fork of NanoSim.
Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.
Tools for plotting methylation data in various ways
Structural variant caller for real-time long-read sequencing data
GUI/CommandLine Tool Box for biologistists to utilize NGS data.
DNA methylation analysis downstream to Nanopolish for Oxford Nanopore DNA sequencing datasets
Haplotype aware de novo assembly of diploid genome from long reads
Read-based phasing of genomic variants, also called haplotype assembly
Generate an interactive dot plot from mummer or minimap alignments
Dotplot large Genomes in an Interactive, Efficient and Simple way
Efficient and accurate pathogenicity prediction for coding and regulatory structural variants in long-read genome sequencing
H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)
paoloshasta / shasta
Forked from chanzuckerberg/shastaDe novo assembly from Oxford Nanopore reads.
[MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads
Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations
Toolset for SV simulation, comparison and filtering
Long read based human genomic structural variation detection with cuteSV
Structural variation caller using third generation sequencing
Plotting scripts for long read sequencing data
Copy number variant detection from targeted DNA sequencing
a Shiny/R application to view and annotate copy number variations
Tool for finding matches to degenerate sequence motifs in FASTA files.
A genome-scale, fast, and precise segmental duplications mapping tool