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Pacbio Long Reads Compatible Software and Tools
By Archana Malhotra 3430 days agogithub.com - The following software packages are known to be compatible with PacBio® data, in addition to PacBio's own SMRT® Analysis suite. All packages are believed to be open source or freely available for non-commercial use. See the individual...Choosing the Right NGS Sequencing Instrument for Your Study
By Neel 1512 days agogenohub.com - The right sequencing instrument for your study depends on your project goal. Setting aside turnaround time and price, it essentially comes down to the numbers of reads and read length you need for your experiment. Below, we've described and compared...Common steps for reads mapping !
By BioStar 1245 days agoMapping reads to a reference genome is an essential step in many types of genomic analysis, such as variant calling and gene expression analysis.1mb long DNA with Nanopore technology
By Jit 3150 days agoLongest read of 1mb achievements with NanoporePacasus: Correction of palindromes in long reads from PacBio and Nanopore
By BioStar 2823 days agogithub.com - Tool for detecting and cleaning PacBio / Nanopore long reads after whole genome amplification. Check the poster from the Revolutionizing Next-Generation Sequencing (2nd edition) conference in the source...CoLoRMap: Correcting Long Reads by Mapping short reads
By Jit 2907 days agogithub.com - Second generation sequencing technologies paved the way to an exceptional increase in the number of sequenced genomes, both prokaryotic and eukaryotic. However, short reads are difficult to assemble and often lead to highly fragmented assemblies....GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
By Jit 3346 days agogithub.com - GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/ncomms11307.htmlFeatures Mapping position agnostic to alignment parameters. ...WhatsHap: fast and accurate read-based phasing
By Jit 2991 days agowhatshap.readthedocs.io - WhatsHap is a software for phasing genomic variants using DNA sequencing reads, also called read-based phasing or haplotype assembly. It is especially suitable for long reads, but works also well with short reads. Features Very accurate...CLARK: Fast, accurate and versatile sequence classification system
By Jit 2363 days agoclark.cs.ucr.edu - CLARK, a method based on a supervised sequence classification using discriminative k-mers. Considering two distinct specific classification problems (see the article for details), namely (1) the taxonomic classification of metagenomic reads to...HELIANO: A fast and accurate tool for detection of Helitron-like elements
By LEGE 722 days agogithub.com - Helitron-like elements (HLE1 and HLE2) are DNA transposons. They have been found in diverse species and seem to play significant roles in the evolution of host genomes. Although known for over twenty years, Helitron sequences are still challenging...
