![]() It can also be applied to other phased human genomes, as well as genomes from other species. ![]() Our pipeline combines popular sequence datasets and tree building algorithms with custom data parsing to generate accurate alignments and phylogenies using all the individuals from the 1000 Genomes Project, Neanderthal and Denisovan genomes, as well as reference genomes of Chimpanzee and Rhesus Macaque. Here, we provide VCFtoTree, a user friendly tool with a graphical user interface that directly accesses online databases to download, parse and analyze genome variation data for regions of interest. However, no user-friendly tool has been developed to integrate thousands of recently available and anthropologically relevant genome sequences to construct complete sequence alignments and phylogenies. Xu, Duo Jaber, Yousef Pavlidis, Pavlos Gokcumen, OmerĬonstructing alignments and phylogenies for a given locus from large genome sequencing studies with relevant outgroups allow novel evolutionary and anthropological insights. VCFtoTree: a user-friendly tool to construct locus-specific alignments and phylogenies from thousands of anthropologically relevant genome sequences. GFFview is very useful for investigating quality and difference of the de novo assembled transcriptome in RNA-seq studies. ![]() In this study, we provide a web server (GFFview) for parsing the annotation information of eukaryotic genome and then generating statistical description of six indices for visualization. Therefore, it is a challenge for manipulating GFF file for biologists who have no bioinformatic skill. Annotation information of genome is prevalently stored as plain text in General Feature Format (GFF), which could be hundreds or thousands Mb in size. Owing to wide application of RNA sequencing (RNA-seq) technology, more and more eukaryotic genomes have been extensively annotated, such as the gene structure, alternative splicing, and noncoding loci. GFFview: A Web Server for Parsing and Visualizing Annotation Information of Eukaryotic Genome.ĭeng, Feilong Chen, Shi-Yi Wu, Zhou-Lin Hu, Yongsong Jia, Xianbo Lai, Song-Jia
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