Results for "ANnotation"
Tags
Tools for bacterial whole genome annotation
RAST – Web tool (upload contigs), uses the subsystems in the SEED database and provides detailed annotation and pathway analysis. Takes several hours per genome but I think this is the best way to get a high quality annotation (if you have only a few genomes to annotate). Pr...Tags: Tools, bacterial, whole, genome, annotation, prokaryotic, genes
2323 days ago
bpRNA: large-scale automated annotation and analysis of RNA secondary structure
bpRNA, a novel annotation tool capable of parsing RNA structures, including complex pseudoknot-containing RNAs, to yield an objective, precise, compact, unambiguous, easily-interpretable description of all loops, stems, and pseudoknots, along with the positions, sequence, and flanking base pairs ...Tags: bpRNA, large-scale, automated, annotation, analysis, RNA, secondary, structure
2166 days ago
- ChopStitch is a new method for finding putative exons and constructing splice graphs using an assembled transcriptome and whole genome shotgun sequencing (WGSS) data. ChopStitch identifies exon-exon boundaries in de novo assembled RNA-seq data with the help of a Bloom filter that represents the k...
Tags: ChopStitch, exon, annotation, splice, graph, transcriptome, assembly, whole, genome, sequencing
2125 days ago
KOBAS: a web server for gene/protein functional annotation and functional gene set enrichment
KOBAS 3.0 is a web server for gene/protein functional annotation (Annotate module) and functional gene set enrichment(Enrichment module). For Annotate module, it accepts gene list as input, including IDs or sequences, and generates annotations for each gene based on multiple databases about ...Tags: KOBAS, web, server, gene, protein, functional, annotation, functional, gene, set, enrichment, KEGG
2017 days ago
MITOS: improved de novo metazoan mitochondrial genome annotation
Allows automatic annotation of metazoan mitochondrial genomes. MITOS is a pipeline designed to compute a consistent de novo annotation of the mitogenomic sequences. The software allows for a systematic error screening, the standardisation of gene name and gene boundary designation, anticodon labe...Tags: MITOS, improved, de novo, metazoan, mitochondrial, genome, annotation
2010 days ago
- KOALA (KEGG Orthology And Links Annotation) is KEGG's internal annotation tool for K number assignment of KEGG GENES using SSEARCH computation. BlastKOALA and GhostKOALA assign K numbers to the user's sequence data by BLAST and GHOSTX searches, respectively, against ...
Tags: KOALA, KEGG, annotation, tool, assignment, KEGG, GENES, SSEARCH, computation, Bacteria, Blast
1963 days ago
GenomeView: genome browser and annotation editor
GenomeView is a genome browser and annotation editor that displays reference sequence, annotation, multiple alignments, short read alignments and graphs. Most major data formats are supported. Local and internet files can be loaded.This project has moved to GitHub: https://github.com/GenomeV...Tags: GenomeView, genome, browser, annotation, editor
1942 days ago
- gene_info recalculated daily--------------------------------------------------------------------------- tab-delimited one line per GeneID Column header line is the first line in the file. Note: subsets of gene_info are available in the DATA/GENE_INFO directory (described later)-------------------...
Tags: Details, annotation, genes, gene_info, function, ncbi, detail
1933 days ago
multiPhATE: bioinformatics pipeline for functional annotation of phage isolates
multiple-genome Phage Annotation Toolkit and Evaluator (multiPhATE). multiPhATE is a throughput pipeline driver that invokes an annotation pipeline (PhATE) across a user-specified set of phage genomes. This tool incorporates a de novo phage gene-calling algorithm and assigns putative fu...Tags: multiPhATE, bioinformatics, pipeline, functional, annotation, phage, isolates
1808 days ago
