Our Sponsors
Related items
IONiseR: tools for the quality assessment of data produced by Oxford Nanopore’s MinION sequencer
By Jit 2555 days agowww.bioconductor.org - This package is intended to provide tools for the quality assessment of data produced by Oxford Nanopore’s MinION sequencer. It includes a functions to generate a number plots for examining the statistics that we think will be useful for this...Porechop: tool for finding and removing adapters from Oxford Nanopore reads
By Rahul Nayak 2368 days agogithub.com - Porechop is a tool for finding and removing adapters from Oxford Nanopore reads. Adapters on the ends of reads are trimmed off, and when a read has an adapter in its middle, it is treated as chimeric and chopped into separate reads. Porechop...HALC: High throughput algorithm for long read error correction
By Jit 2358 days ago Comments (1)github.com - HALC, a high throughput algorithm for long read error correction. HALC aligns the long reads to short read contigs from the same species with a relatively low identity requirement so that a long read region can be aligned to at least one contig...Deepbinner: a signal-level demultiplexer for Oxford Nanopore reads
By Neel 2186 days agogithub.com - Deepbinner is a tool for demultiplexing barcoded Oxford Nanopore sequencing reads. It does this with a deep convolutional neural network classifier, using many of the architectural advances that have proven successful...1mb long DNA with Nanopore technology
By Jit 2529 days agoLongest read of 1mb achievements with Nanoporenanofilt: Filtering and trimming of long read sequencing data
By Jit 2306 days ago Comments (1)github.com - Filtering on quality and/or read length, and optional trimming after passing filters.Reads from stdin, writes to stdout. Intended to be used: directly after fastq extraction prior to mapping in a stream between extraction and...Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome
By Jit 2549 days agoschatzlab.cshl.edu - Monitoring the progress of DNA molecules through a membrane pore has been postulated as a method for sequencing DNA for several decades. Recently, a nanopore-based sequencing instrument, the Oxford Nanopore MinION, has become available that we used...Katuali is a flexible consensus pipeline implemented in Snakemake to basecall, assemble, and polish...
By Jit 2130 days agogithub.com - Run a pipeline processing fast5s to a consensus in a single command. Recommended fixed "standard" and "fast" pipelines. Interchange basecaller, assembler, and consensus components of the pipelines simply by changing the target filepath. Seemless...Jvarkit : Java utilities for Bioinformatics
By Jit 2358 days agolindenb.github.io - Collection of Java tool kits for bioinformatics works: Jvarkit : Java utilities for BioinformaticsBioinformatics tools developed for Oxford Nanopore data analysis !
By biogeek 2520 days ago Comments (2)One of the technical advantages of ONT data is the read length, which offers great prospects for genome assembly.
