In this study, we developed Its2vec, a bioinformatics tool for the classification of fungal ITS barcodes to the species level. However, high variation in the ITS region and computational requirements for processing high-dimensional features remain challenging for existing predictors. To cope with massive fungal barcode data, tools that can implement extensive volumes of barcode sequences, especially the internal transcribed spacer (ITS) region, are necessary. 1999‑2023 - All Rights Reserved.Fungi play essential roles in many ecological processes, and taxonomic classification is fundamental for microbial community characterization and vital for the study and preservation of fungal biodiversity. Programs and databases for comparative analysis of genomic sequences.Ĭopyright © Israel Science and Technology Directory. Open-source tool to find and classify phenotypic correlations for variations in whole genomes.Ĭlassification of predicted open-reading frames (ORFs) from viral metagenomes. Searching transcription factor binding sites (TATA boxes, GC boxes, CCAAT boxes, transcription start sites (TSS). Genetic linkage analysis with input-output relationships similar to those in standard genetic linkage programs. Software for next generation sequencing technologies, transcriptome analysis (with RNASeq data), SNP detection and selection of disease specific SNP subsets JavaScript programs for generating, formatting, and analyzing short DNA and protein sequences. Program for faster alignment of short oligonucleotides onto reference sequences for next generation sequencing data analysis. Maps sites for restriction enzymes (restriction endonucleases) in DNA sequences. Figures may be rendered in PNG, JPG, SVG or SVGZ format.Īnalyzes a DNA sequence to identify Restriction Enzyme Sites and generate a comprehensive map overview of their locations within the DNA sequence. Generates and annotates plasmid maps using only plasmid DNA sequence as input. Tool to visualize sequence alignments and consensus sequences showing the relative frequencies of the bases at each position. Motif-based analysis of DNA, RNA and protein sequences.Įxamines DNA sequence to find large, non-overlapping open reading frames (ORFs) and sites for all restriction enzymes that cut the sequence just once.Īlignments for multiple protein sequences or structures using information from sequence database searches, secondary structure prediction, available homologs with 3D structures. Predicting the locations and exon-intron structures of genes in genomic sequences from a variety of organisms. Gene Prediction in Bacteria, Archaea and Metagenomes. Reformatting sequences, producing the reverse complement of a sequence, extracting fragments of a sequence, sequence case conversion or any combination of the above functions. Identify and report CpG islands in nucleotide sequences. Generates a codon usage table for the input sequence. Server for the identification of functionally and structurally important residues in protein sequences. Clustering 16S rRNA tags into OTUs (454, Iontorrent and Illumina reads). Clustering analysis of various types of DNAs and RNAs. Creating non-redundant datasets for proteins. Nucleic tools: Primer design.Ī series of programs for sequence comparisons. Protein tools: structure prediction, blast, multiple sequence alignment, randomize sequence. Software system for the analysis, rebuilding, and visualization of three-dimensional nucleic-acid-containing structuresĪnnotation of Microbial Genes for for automatically identifying the most likely CoDing Sequences (CDSs).īLAST Search of Nucleotide, Protein and Genome DatabasesĬompare your query sequence to the working draft sequence of the human genome or its mRNA and protein products. Online Software for Sequence Analysis Online Primer Design Tools
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