Topic: oxford-nanopore Goto Github
Some thing interesting about oxford-nanopore
Some thing interesting about oxford-nanopore
oxford-nanopore,Predict plasmids from uncorrected long read data
User: andrewjpage
oxford-nanopore,DeepSelecNet is an enhanced deep learning model to perform read classification for selective sequencing.
User: anjanasenanayake
oxford-nanopore,simON-reads ("Simulate Oxford Nanopore Reads") is a simple yet powerful tool to generate fastq files containing MiniON-like long reads
User: astrabert
Home Page: https://astrabert.github.io/simON-reads/
oxford-nanopore,A novel ML-based binary classifier to tell viral and non-viral long reads apart in metagenomic samples.
User: astrabert
Home Page: https://astrabert.github.io/VirBiCla/
oxford-nanopore,🌈Scaffold genome sequence assemblies using linked or long read sequencing data
Organization: bcgsc
oxford-nanopore,⛏HLA predictions from NGS shotgun data
Organization: bcgsc
oxford-nanopore,Nanopore sequence read simulator
Organization: bcgsc
oxford-nanopore,A pipeline for high-quality bacterial genome construction using ONT sequencing
Organization: beatsonlab-microbialgenomics
oxford-nanopore,Low level bindings and wrapper for slow5lib, an alternative for ONT Nanopore sequencing FAST5 output
User: bsaintjo
oxford-nanopore,Nextflow pipeline to process SARS-CoV-2 genomes by Nanopore Sequencing using ARTIC (https://github.com/artic-network/fieldbioinformatics) tools
Organization: catg-umag
oxford-nanopore,The project aims to optimize the Dynamic Time Warping (DTW) algorithm and accelerate it using Graphics Processing Units (GPUs), So that algorithm can be executed in a GPU-equipped laptop or a GPU-equipped embedded device like NVIDIA Jetson, rather than connecting to a massive server.
Organization: cepdnaclk
oxford-nanopore,Isocomp provides tools to compare any number of transcriptome assemblies (GTF + fasta) from long read RNAseq
Organization: collaborativebioinformatics
oxford-nanopore,The repository contains the source code of the NanoForms server (Czmil et al. NanoForms: an integrated server for processing, analysis and assembly of raw sequencing data of microbial genomes, from Oxford Nanopore technology. PeerJ, 2022). It is meant to be the source for standalone server installation. https://doi.org/10.7717/peerj.13056
User: czmilanna
Home Page: https://nanoforms.tech/
oxford-nanopore,Nanopore data analysis in R
User: davidebolo1993
oxford-nanopore,A Mapping tool using gapped minimizer and BWT FM-index
User: enamcse
oxford-nanopore,Scripts to download the PacBio, ONT and MiSeq datasets used in https://www.nature.com/articles/s41598-017-03996-z and run the pipelines as described in the paper or simply download the final assemblies as generated by the authors.
User: fg6
oxford-nanopore,Chromosome Scale Assembler: A high-throughput chromosome scale genome assembly pipeline for vertebrate genomes
User: hmpnk
oxford-nanopore,Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
User: jonas-fuchs
oxford-nanopore,A pipeline for variant calling from P. falciparum short reads generated from Illumina and ONT libraries
User: kevin-wamae
oxford-nanopore,H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)
User: kishwarshafin
oxford-nanopore,PEPPER-Margin-DeepVariant
User: kishwarshafin
oxford-nanopore,De novo clustering of long transcript reads into genes
User: ksahlin
oxford-nanopore,This workflow uses Dorado, Samtools, Clair3, WhatHap and Modkit to extract a modification count table containing information for each relevant site.
User: lauraskak
oxford-nanopore,CLI tool for flexible and fast adaptive sampling on ONT sequencers
Organization: looselab
Home Page: https://looselab.github.io/readfish/
oxford-nanopore,Quality control plotting for long reads
User: mbhall88
oxford-nanopore,Synchronise Nanopore reads with a server.
User: mbhall88
oxford-nanopore,A Python library to visualize and analyze long-read transcriptomes
Organization: mortazavilab
Home Page: https://freese.gitbook.io/swan/
oxford-nanopore,Technology agnostic long read analysis pipeline for transcriptomes
Organization: mortazavilab
oxford-nanopore,Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome
Organization: mortazavilab
oxford-nanopore,Fast and accurate de novo assembler for long reads
Organization: nextomics
oxford-nanopore,Assembly and intrahost/low-frequency variant calling for viral samples
Organization: nf-core
Home Page: https://nf-co.re/viralrecon
oxford-nanopore,Customised reporting of ONT pinfish analysis results
Organization: nucleomics-vib
oxford-nanopore,An awesome Oxford Nanopore Pipeline for direct RNA-sequencing
Organization: openomics
Home Page: https://openomics.github.io/modr/
oxford-nanopore,A rapid pipeline for targeted ONT monkeypox sequencing
Organization: openomics
Home Page: https://openomics.github.io/mpox-seek
oxford-nanopore,NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations
User: philres
oxford-nanopore,A versatile compressor of third generation sequencing reads.
Organization: refresh-bio
oxford-nanopore,Magnipore: Differential single nucleotide changes of ONT signals
Organization: rnajena
oxford-nanopore,Wrapper to read fast5, slow5, blow5 and pod5 files.
Organization: rnajena
Home Page: https://jannessp.github.io/read5.github.io/
oxford-nanopore,A regular expression based polyATGC trimmer for the long reads or the fastq reads extremely fast and returns a fasta and also a dataframe for the sequence classification
User: sablokgaurav
oxford-nanopore,a long read repeat coverage calculator,given an long read file before assembly either direct from the sequencing runs or after the cleaning, it calculates the total amount of the repeat stretches present in the sequencing reads and you can plot them before assembly
User: sablokgaurav
oxford-nanopore,Identification of epigenetic sites in MealyBugs using ONT Nanopore Sequencing
User: sanaz01
oxford-nanopore,preqclr is a software tool that reports on quality for long read sequencing data without the use of a reference genome.
Organization: simpsonlab
Home Page: http://preqc-lr.readthedocs.io/en/latest/
oxford-nanopore,Analysis of MinION sequence data from water and sediment samples for Avian Influenza Detection
User: sociovirology
oxford-nanopore,Long read based human genomic structural variation detection with cuteSV
User: tjianghit
oxford-nanopore,STRspy: a novel alignment and quantification-based state-of-the-art method, short tandem repeat (STR) detection calling tool designed specifically for long-read sequencing reads such as from Oxford nanopore technology (ONT) and PacBio.
User: unique379r
oxford-nanopore,Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.
Organization: vpc-ccg
oxford-nanopore,Long sequencing reads classifier
User: yaoli3
oxford-nanopore,SNP-Assisted SV Calling and Phasing Using ONT
User: yekaizhou
oxford-nanopore,LRSDAY: Long-read Sequencing Data Analysis for Yeasts
User: yjx1217
Home Page: https://yjx1217.github.io/Yeast_PacBio_2016/software/
oxford-nanopore,Detect and phase minor SNVs from long-read sequencing data
User: zhixingfeng
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