Newer protocols are more efficient now, compared to TopHat such as cufflinks, STAR, and limma. It has been superseded by HISAT2, which is more efficient and accurate and provides the same core functionality (spliced alignment of RNA-Seq reads).
TopHat is in a low maintenance, low support stage, and contains software bugs that have spawned 3rd party post-processing software to correct. Īnother advantage for TopHat is that it does not need to rely on known splice sites when aligning reads to a reference genome. If you are using TopHat for RNA-Seq data, you will get more read aligned against the reference genome. Tophat uses Bowtie in the beginning to analyze the reads, but then does more to analyze the reads that span exon-exon junctions. We utilize the latest technology to better serve our customers and provide a streamlined truck turnaround, which helps reduce our customers truck wait time and transportation costs.
Enjoy top service on our superb custom built 39' catamaran offering you a variety of cruises from full day to sunset barbecue cruises. Topcat Waste Management Facility provides our customers advanced oilfield disposal services in a safe, dependable and environmentally-friendly manner. He meets and attempts to impress Dale Tremont (Ginger Rogers) to win her affection. That speed allowed the user to process and entire RNA-Seq experiment in less than a day, even on a standard desktop computer. Learn more about verified organizations Overview Repositories Packages People Projects Pinned yvm Public Manage multiple versions of Yarn JavaScript 302 15. Topcat catamaran cruises, the coolest cat in the North of Mauritius. Top Hat is a 1935 American musical screwball comedy film in which Fred Astaire plays an American tap dancer named Jerry Travers, who comes to London to star in a show produced by Horace Hardwick (Edward Everett Horton). It mapped more than 2.2 million reads per CPU hour. When TopHat first came out, it was faster than previous systems. TopHat can be used with the Tuxedo pipeline, and is frequently used with Bowtie.Īdvantages/Disadvantages Advantages It is useful because it does not need to rely on known splice sites. Ive got pot rn sooo idk if my bud wants to get a nother one but yea-reset/mrsuit hey the tophatacorn girl here, I dont want this anymore- imahappybritishboy23. It is a read-mapping algorithm and it aligns the reads to a reference genome. TopHat is used to align reads from an RNA-Seq experiment. TopHat is a collaborative effort between Cole Trapnell at the University of Washington and Daehwan Kim and Steven Salzberg in the Center for Computational Biology at Johns Hopkins University who together in 2013 also came up with TopHat2 which does accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Trapnell later moved to Genome Sciences Department at the University of Washington. TopHat was originally developed in 2009 by Cole Trapnell, Lior Pachter and Steven Salzberg at the Mathematics Department, UC Berkeley and the Center for Bioinformatics and Computational Biology at the University of Maryland, College Park.