Jit
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OrthoANI: An improved algorithm and software for calculating average nucleotide identity
By Abhimanyu Singh 2645 days agowww.ezbiocloud.net - OAT uses OrthoANI to measure the overall similarity between two genome sequences. ANI and OrthoANI are comparable algorithms: they share the same species demarcation cut-off at 95~96% and large comparison studies have demonstrated both algorithms to...
Evaluation of genome assembly software based on long reads
By BioStar 2593 days agoTGS technologies have been used to produce highly accurate de novo assemblies of hundreds of microbial genomes and highly contiguous reconstructions of many dozens of plant and animal genomes, enabling new insights into evolution and sequence...Juicebox: Visualization and analysis software for Hi-C data
By Jit 2209 days agogithub.com - Juicebox is visualization software for Hi-C data. This distribution includes the source code for Juicebox, Juicer Tools, and Assembly Tools. Download Juicebox here, or use Juicebox on the web. Detailed documentation is...Ancient whole genome duplication (WGD) detection tools !
By Rahul Nayak 1829 days agoThere are two methods for ancient WGD detection, one is collinearity analysis, and the other is based on the Ks distribution map. Among them, Ks is defined as the average number of synonymous substitutions at each synonymous site, and there is...GEnView: A phylogeny based comparative genomics software to analyze the genetic environment of genes
By Abhi 1533 days agogithub.com - A phylogeny based comparative genomics software to analyze the genetic environment of genes. The user can select one or several taxa and provide one or several reference protein(s). Genomes and plasmids (based on user choice) will be downloaded from...dna2bit: an ultra-fast and accurate genomic distance estimation software
By LEGE 191 days agogithub.com - dna2bit is a software tool developed in C++11, leveraging the capabilities of OpenMP for parallel computing and the popcount technique for efficient bit manipulation. It has been thoroughly tested using the g++ and clang compilers on both Linux and...
Is reference genome necessary for gene expression study in transcriptome sequencing or for variant discovery in genome sequencing?
Rahul Agarwal 4618 days ago320000 viruses in mammals yet to sequenced in future!!!
By Rahul Agarwal 4571 days ago70 per cent of emerging viral diseases such as HIV/AIDS, West Nile, Ebola, SARS, and influenza, are zoonoses - infections of animals that cross into humans.RNA Bioinformatics and High Throughput Analysis Jena
Research Topics: High Throughput Sequencing Analysis Comparative Genomics Identification and Annotation of Non-coding RNAs Bioinformatic Analysis and System Biology of Viruses Coevolution of Proteins and RNAs Algorithmic...
