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JupyterLab desktop application, based on Electron.
Script to split and map Oxford Nanopore reads for VSG-BarSeq experiments.
python module to plot beautiful and highly customizable genome browser tracks
A single molecule sequence assembler for genomes large and small.
Software for detecting regions of BrdU and EdU incorporation in Oxford Nanopore reads.
A genome annotation tool for more than just protists
A PyTorch Basecaller for Oxford Nanopore Reads
Methylation/modified base calling separated from basecalling.
pycoSnake is a neatly wrapped collection of snakemake workflows for analysing nanopore and Illumina sequencing data
RNA modifications detection from Nanopore dRNA-Seq data
Magnipore: Differential single nucleotide changes of ONT signals
Ultra-fast methylation calling and event alignment tool for nanopore sequencing data (supports CUDA acceleration)
DeepEdit: single-molecule detection and phasing of A-to-I RNA editing events using Nanopore direct RNA sequencing
paoloshasta / shasta
Forked from chanzuckerberg/shastaDe novo assembly from Oxford Nanopore reads.
Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly
De novo assembler for single molecule sequencing reads using repeat graphs
Splitting of sequence reads by internal adapter sequence search
Variant Antigen Profiling for Trypanosoma congolense and Trypanosoma vivax
Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.
Grid and ggplot2 based visualization for biological data
karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome
🌺 reference-free transcriptome assembly for short and long reads
COVERnant - A tool to generate and manipulate coverage plots of high-throughput sequencing data.
Official code repository for GATK versions 4 and up