Search results
Results from the WOW.Com Content Network
BLAST output parsers: MuSeqBox, Zerg, BioParser, BLAST-Explorer, SequenceServer; specialized BLAST-related tools: MEGAN, BLAST2GENE, BOV, Circoletto; Example visualizations of BLAST results are shown in Figure 4 and 5. Fig. 4 Circos-style visualization of BLAST results generated using SequenceServer software.
Here is an example of a FASTA format, ... Example of ClustalW output. Output format ... (BLOSUM62 for BLAST, BLOSUM50 for SEARCH and FASTA). Different similarity ...
The FAST4 format was invented as a derivative of the FASTQ format where each of the 4 bases (A,C,G,T) had separate probabilities stored. It was part of the Swift basecaller, an open source package for primary data analysis on next-gen sequence data "from images to basecalls". The FAST5 format was invented as an extension of the FAST4 format.
Thus, the examples above would be a multi-FASTA file if taken together. Modern bioinformatics programs that rely on the FASTA format expect the sequence headers to be preceded by ">". The sequence is generally represented as "interleaved", or on multiple lines as in the above example, but may also be "sequential", or on a single line.
The name of SAM came from Gabor Marth from University of Utah, who originally had a format under the same name but with a different syntax more similar to a BLAST output. [2] It is widely used for storing data, such as nucleotide sequences, generated by next generation sequencing technologies, and the standard has been broadened to include ...
The extensible NEXUS file format is widely used in bioinformatics.It stores information about taxa, morphological and molecular characters, distances, genetic codes, assumptions, sets, trees, etc. [1] Several popular phylogenetic programs such as PAUP*, [2] MrBayes, [3] Mesquite, [4] MacClade [5] and SplitsTree [6] use this format.
Get AOL Mail for FREE! Manage your email like never before with travel, photo & document views. Personalize your inbox with themes & tabs. You've Got Mail!
They all share the same structure for the first 7 fields, while differing in the content and format of the ninth field. Some field names have been changed in GFF3 to avoid confusion. For example, the "seqid" field was formerly referred to as "sequence", which may be confused with a nucleotide or amino acid chain. The general structure is as ...