46 skills found · Page 2 of 2
novoalab / M6ABasecallerAn m6A-aware basecalling model to detect m6A modifications at single nucleotide resolution in individual reads (Cruciani, Delgado-Tejedor, Pryszcz et al., BioRxiv 2023)
marcpaga / Basecalling ArchitecturesNo description available
novoalab / ModPhredmodPhred is a pipeline for detection of DNA/RNA modifications from raw ONT data
sanger-pathogens / Nano RaveNextflow pipeline designed for rapid onsite QC and variant calling of Oxford Nanopore data (following basecalling and demultiplexing with Guppy).
ErasmusMC-Bioinformatics / WeFaceNanoNanopore plasmid pipeline (FAST5 basecalling, assembly, plasmid identification and antimicrobial resistance genes identification).
warp9seq / OpenfishGPU CRF-CTC decoding for nanopore basecalling
biodlab / RODANA fully convolutional architecture for basecalling nanopore RNA sequencing data
comprna / RadianNanopore direct RNA basecaller
carsweshau / POREqualityThis is an early version of POREquality, an R Markdown document designed to be ran as part of a Nanopore local basecalling pipeline.
CMU-SAFARI / Molecules2VariationsThe first work to provide a comprehensive survey of a prominent set of algorithmic improvement and hardware acceleration efforts for the entire genome analysis pipeline used for the three most prominent sequencing data, short reads (Illumina), ultra-long reads (ONT), and accurate long reads (HiFi). Described in arXiv (2022) by Alser et al. https://arxiv.org/abs/2205.07957
emilitronic / SequelizerGenomics for mobile hardware
BHam-1 / DNArSimDNA Archive Simulator (DNArSim) is a memory channel model that simulate the entire DNA Data Storage process: from synthesis to basecalling. This simulator is part of the DnarXiv Project.
ncezid-narst / StyloNanopore assembly workflow from basecalled reads to polished assembly plus assembly QC, metrics, and plasmid replicon detection
vibaotram / BaseDmuxsnakemake workflow for basecalling and demultiplexing of ONT sequencing data
CMU-SAFARI / TargetCallTargetCall is the first pre-basecalling filter that is applicable to a wide range of use cases to eliminate wasted computation in basecalling. Described in our preprint: https://arxiv.org/abs/2212.04953
egonozer / Minion MonitorScripts to offload and remotely basecall fast5 files from an Oxford Nanopore MinION run
nanobaselib / NanoBaseLib[NeurIPS 2024] A Multi-task Benchmark Dataset for Nanopore Sequencing.
phac-nml / NanogoA comprehensive bioinformatics pipeline for Oxford Nanopore Technologies. The tool offers Dorado-based basecalling with duplex options, amplicon read assembly and polishing, primer trimming, and quality control. Designed for efficient parallel processing and enhanced by interactive input and output configuration.
novoalab / Basecalling ModelsBenchmarked base calling models for nanopore sequencing providing super high accuracy and improved RNA modification detection
MPUSP / Snakemake Ont BasecallingA Snakemake workflow for basecalling and demultiplexing of Oxford Nanopore data using Dorado.
