Rahul Nayak
A Bioinformatician
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MitoZ: a toolkit for animal mitochondrial genome assembly, annotation and visualization
By Jit 2444 days agogithub.com - MitoZ is a Python3-based toolkit which aims to automatically filter pair-end raw data (fastq files), assemble genome, search for mitogenome sequences from the genome assembly result, annotate mitogenome (genbank file as result), and mitogenome...List of popular bioinformatics software/tools
By Jitendra Narayan 4827 days ago Comments (28)samtools.sourceforge.net - In current genome era, our day to day work is to handle the huge geneome sequences, expression data, several other datasets. This link provide a comprehensive list of commonly used sofware/tools.deepTools
By Martin Jones 4347 days agoUser-friendly tools for the normalization and visualization of deep-sequencing dataComputer simulation of genetic mechanism !!
By Jit 3856 days ago Comments (2)Computer simulation is the discipline of designing a model of an actual or theoretical physical/biological system, executing the model on a digital computer, and analyzing the execution output.
Tools for Searching Repeats And Palindromic Sequences
Last updated 3092 days ago by Poonam Mahapatra Comments (2)What are genomic interspersed repeats? In the mid 1960's scientists discovered that many genomes contain stretches of highly repetitive DNA sequences ( see Reassociation Kinetics Experiments, and C-Value Paradox ). These sequences were later...CSBB-v1.0
By Neel 3748 days agogithub.com - CSBB is a command line based bioinformatics suite to analyze biological data acquired through varied avenues of biological experiments. CSBB is implemented in Perl, while it also leverages the use of R and python in background for specific modules....Finding Patterns in Biological Sequences
By Jit 3572 days agoengr.case.edu - In this report we provide an overview of known techniques for discovery of patterns of biological sequences (DNA and proteins). We also provide biological motivation, and methods of biological verification of such patterns. Finally we list publicly...Software and Tools to detect structure variation with long reads !!
By Archana Malhotra 3489 days agoStructural variation caller tools using long readsd3Network:Tools for creating D3 JavaScript network, tree, dendrogram, and Sankey graphs from R.
By Jit 3102 days agochristophergandrud.github.io - Mike Bostock’s D3.js is great for creating interactive network graphs with JavaScript. The d3Network package makes it easy to create these network graphs from R. The main idea is that you should able to take...-
Ligand Docking Tools and Software !
Last updated 3083 days ago by Poonam MahapatraLigand docking referred to cases where small molecule (“ligand”) is being docked into much larger macromolecule ("target"). The following is partial list of docking software, focusing on free (at least for academic institutes) and/or...
