Poonam Mahapatra
Bioinformatics Researcher
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Next generation sequencing in R or bioconductor environment
Last updated 4394 days ago by John Parker Comments (3)There are many R software and bioconductor packages for NGS data analysis, some of them are as follows Biostrings The Biostrings package from Bioconductor provides an advanced environment for efficient sequence management and analysis in R. It...MIX: Combining multiple assemblies from NGS data
By Rahul Nayak 2959 days agogithub.com - Mix is a tool that combines two or more draft assemblies, without relying on a reference genome and has the goal to reduce contig fragmentation and thus speed-up genome finishing. The proposed algorithm builds an extension graph where vertices...Postdoc position at Centre Méditerranéen de Médecine Moléculaire - Nice - France
The research group of Dr. Michele Trabucchi at the Centre Méditerranéen de Médecine Moléculaire (C3M) at INSERM U1065 (University of Nice Sophia-Antipolis, France) is seeking candidates for a Postdoctoral fellow position to start on October 2014 for...vcfR: a package to manipulate and visualize VCF data in R
By Jit 2789 days agogithub.com - VcfR is an R package intended to allow easy manipulation and visualization of variant call format (VCF) data. Functions are provided to rapidly read from and write to VCF files. Once VCF data is read into R a parser function extracts matrices from...Ten recommendations for creating usable bioinformatics command line software
By RAJESH DETROJA 4389 days agowww.gigasciencejournal.com - Bioinformatics software varies greatly in quality. In terms of usability, the command line interface is the first experience a user will have of a tool. Unfortunately, this is often also the last time a tool will be used. Here I present ten...Tools for RNA classification
By Abhi 1314 days ago Comments (1)The method used to isolate, enrich and sequence a sample will affect the composition of the sequencing data in terms of the types of RNA species represented and their relative abundancesBioinformatics algorithms tutorials
By John Parker 4373 days agowww.homolog.us - Useful bioinformatics tutorial, such as De Bruijn Graphs for NGS AssemblyAlgorithms for PacBio ReadsSoftware and Hardware Concepts for BioinformaticsFinding us in Homolog.us (Search Algorithms)NGS Genome and RNAseq Assembly - a Hands on...Workshop On Molecular Modeling and Dynamics Simulation Analyses
Workshop On Molecular Modeling and Dynamics Simulation Analyses August1-2, 2014 Organised By Centre of Excellence in Bioinformatics Bioinformatics Infrastructure Facility Department of Biochemistry University of...ECTOOLS: Long Read Correction and other Correction tools
By Jit 3082 days agogithub.com - Long Read Correction and other Correction tools This package is a loose collection of scripts. To run the correctionroutine see the section below. Descriptions of the other scriptsare at the bottom of this file. Contact: gurtowsk@cshl.edu In...
