Visualize data software#
VirusFinder: Software for Efficient and Accurate Detection of Viruses and Their Integration Sites in Host Genomes through Next Generation Sequencing Data. Overview of Virus Metagenomic Classification Methods and Their Biological Applications. Nooij S., Schmitz D., Vennema H., Kroneman A., Koopmans M.P.G. Metagenomic analysis of the Rhinopithecus bieti fecal microbiome reveals a broad diversity of bacterial and glycoside hydrolase profiles related to lignocellulose degradation. Xu B., Xu W., Li J., Dai L., Xiong C., Tang X., Yang Y., Mu Y., Zhou J., Ding J., et al. NGS analysis bioinformatics data analysis metagenomics shiny virome visualization. With the interactive features in the viromeBrowser we aim to enable scientists without a data science background to compare and extract annotation data and sequences from virome sequencing analysis results. Last, the application makes it easy for users to extract sequences of interest in FASTA format. Next, multiple samples can be visualized to facilitate comparison of contig annotations based on sample specific metadata values. First, the application allows interactive filtering of annotations by default or custom quality thresholds. The viromeBrowser is an application written in the opensource R shiny framework that was developed in collaboration with end-users and is focused on three common data analysis steps. The next step is to compare the virome of different samples based on the metadata of the experimental setup and extract sequences of interest that can be used in subsequent analyses. The processing of raw sequencing data by high throughput sequencing workflows usually results in contigs in FASTA format coupled to an annotation file linking the contigs to a reference sequence or taxonomic identifier.
Experiments in which complex virome sequencing data is generated remain difficult to explore and unpack for scientists without a background in data science.
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