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To help users interpreting BLAST results, different software is available. According to installation and use, analysis features and technology, here are some available tools: [30] NCBI BLAST service; general BLAST output interpreters, GUI-based: JAMBLAST, Blast Viewer, BLASTGrabber; integrated BLAST environments: PLAN, BlastStation-Free ...
BLASTN BLAST's nucleotide alignment program, slow and not accurate for short reads, and uses a sequence database (EST, Sanger sequence) rather than a reference genome. BLAT: Made by Jim Kent. Can handle one mismatch in initial alignment step. Yes, client-server Proprietary, freeware for academic and noncommercial use [36] 2002 Bowtie
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Nei wrote a monograph (pp. 130) outlining the scope of the software and presenting new statistical methods that were included in MEGA. The entire set of computer programs was written by Kumar and Tamura. The personal computers then lacked the ability to send the monograph and software electronically, so they were delivered by postal mail. From ...
A more complete list of available software categorized by algorithm and alignment type is available at sequence alignment software, but common software tools used for general sequence alignment tasks include ClustalW2 [45] and T-coffee [46] for alignment, and BLAST [47] and FASTA3x [48] for database searching.
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InstallAware Software Active Trialware: Yes Yes Yes InstallCore: InstallCore [2] Discontinued Software as a service: No InstallShield: Flexera Software: Active Trialware: Yes Yes No NSIS: Nullsoft: Active zlib License: No No Orca (Part of Windows SDK) Microsoft: Active Freeware (proprietary) Yes; exclusively Wise: Wise Solutions, Inc ...
Name Description Knots [Note 1]Links References trRosettaRNA: trRosettaRNA is an algorithm for automated prediction of RNA 3D structure. It builds the RNA structure by Rosetta energy minimization, with deep learning restraints from a transformer network (RNAformer). trRosettaRNA has been validated in blind tests, including CASP15 and RNA-Puzzles, which suggests that the automated predictions ...