Neel
Bioinformatics Beginner
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Comparative genomics visualisation tools !
By Neel 1040 days agocmdcolin.github.io - Comparative genomics visualisation tools !Alvis: a tool for contig and read ALignment VISualisation and chimera detection
By LEGE 229 days agogithub.com - Alvis, a simple command line tool that can generate visualisations for a number of common alignment analysis tasks. Alvis is a fast and portable tool that accepts input in a variety of alignment formats and will output production ready vector...HELIANO: A fast and accurate tool for detection of Helitron-like elements
By LEGE 132 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...proovread : large-scale high-accuracy PacBio correction through iterative short read consensus
By Jit 2544 days agogithub.com - proovread : large-scale high-accuracy PacBio correction through iterative short read consensus outperforms PacBioToCA/LSC in terms of accuracy and contiguity/sensitivity (http://dx.doi.org/10.1093/bioinformatics/btu392) is easy to...QuorUM: An Error Corrector for Illumina Reads
By BioStar 1783 days agowww.genome.umd.edu - We produce trimmed and error-corrected reads that result in assemblies with longer contigs and fewer errors. We compared QuorUM against several published error correctors and found that it is the best performer in most metrics we use. QuorUM is...You can't install David Brownlee ;-)
By Jit 2062 days agoDon't be silly, you can't install David Brownlee ;-)NextSV: a meta-caller for structural variants from low-coverage long-read sequencing data
By Jit 2330 days agogithub.com - NextSV, a meta SV caller and a computational pipeline to perform SV calling from low coverage long-read sequencing data. NextSV integrates three aligners and three SV callers and generates two integrated call sets (sensitive/stringent) for different...SDA: Long-read sequence and assembly of segmental duplications
By Jit 2120 days agowww.nature.com - Segmental Duplication Assembler (SDA; https://github.com/mvollger/SDA) constructs graphs in which paralogous sequence variants define the nodes and long-read sequences provide attraction and repulsion edges, enabling the partition and assembly of...Scaffolding of a bacterial genome using MinION nanopore sequencing
By Rahul Agarwal 3456 days agowww.nature.com - Second generation sequencing has revolutionized genomic studies. However, most genomes contain repeated DNA elements that are longer than the read lengths achievable with typical sequencers, so the genomic order of several generated contigs cannot...Bioinformatics tools developed for Oxford Nanopore data analysis !
By biogeek 2552 days ago Comments (2)One of the technical advantages of ONT data is the read length, which offers great prospects for genome assembly.
