Jit
Enthusiast computational biologist with business dream !!!
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MAGIC: A tool for predicting transcription factors and cofactors driving gene sets using ENCODE data
By BioStar 1460 days agogithub.com - The algorithm presented herein, Mining Algorithm for GenetIc Controllers (MAGIC), uses ENCODE ChIP-seq data to look for statistical enrichment of TFs and cofactors in gene bodies and flanking regions in gene lists without...VCF2PopTree: a client-side software to construct population phylogeny from genome-wide SNPs
By Surabhi Chaudhary 1066 days agogithub.com - VCF2PopTree is a client-side software written in Javascript and it runs purely within the user’s computer/browser. VCF2PopTree is compatible with all population browsers including Chrome, Opera, Edge and Firefox and works equally...FUMA GWAS: Functional Mapping and Annotation of Genome-Wide Association Studies
By Jit 2004 days agohttps://fuma.ctglab.nl/ - FUMA is a platform that can be used to annotate, prioritize, visualize and interpret GWAS results. The SNP2GENE function takes GWAS summary statistics as an input, and provides extensive functional annotation for all SNPs in genomic...Simka and SimkaMin are comparative metagenomics method dedicated to NGS datasets
By Neel 1969 days agogithub.com - Simka is a de novo comparative metagenomics tool. Simka represents each dataset as a k-mer spectrum and compute several classical ecological distances between them. Developper: Gaëtan Benoit, PhD, former member of...Next generation sequencing(NGS) books
By Abhimanyu Singh 3832 days ago Comments (1)en.wikibooks.org - Employing different technologies, the purpose of NGS platform is to decode the identity or modification on the nucleotides. NGS platforms evolve quickly and capture the main stream. This bookmark is created to provide NGS online books links.Circlator: automated circularization of genome assemblies using long sequencing reads
By Poonam Mahapatra 2386 days agosanger-pathogens.github.io - A tool to circularize genome assemblies. The algorithm and benchmarks are described in the Genome Biology manuscript. Citation: "Circlator: automated circularization of genome assemblies using long sequencing reads", Hunt et al, Genome Biology...PANNZER: a fully automated service for functional annotation of prokaryotic and eukaryotic proteins...
By BioStar 1565 days agoekhidna2.biocenter.helsinki.fi - PANNZER (Protein ANNotation with Z-scoRE) is a fully automated service for functional annotation of prokaryotic and eukaryotic proteins of unknown function. PANNZER (Protein ANNotation with Z-scoRE) is a fully automated service for...ALPHA: A Toolkit for Automated Local Phylogenomic Analyses
By Jit 2440 days agogithub.com - Automated Local Phylogenomic Analyses, or ALPHA, is a python-based application that provides an intuitive user interface for phylogenetic analyses and data visualization. It has four distinct modes that are useful for different types of phylogenetic...CSBFinder: Discovery of colinear syntenic blocks across thousands of prokaryotic genomes
By Jit 2223 days agogithub.com - CSBFinder is a standalone Desktop java application with a graphical user interface, that can also be executed via command line. CSBFinder implements a novel methodology for the discovery, ranking, and taxonomic distribution analysis of colinear...List of motif discovery tools !
By Neel 2197 days ago Comments (2)A DNA sequence motif represented as a sequence logo for the LexA-binding motif. I
