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BLAST options, setting and defaults
By Jit 2173 days agowww.arabidopsis.org - BLAST stands for Basic Local Alignment Search Tool and was developed by Altschul et al. (1990) and significantly improved by Altschul et al. (1997). It is a very fast search algorithm that is used to separately search protein or DNA...NCBIBLAST+ 2.14.1 now available
By Neel 450 days agoNCBIBLAST+ 2.14.1 now available with improved documentation, faster and more reliable database downloads, and some bug fixes.Webinar: BLAST in the Cloud
By Robert M Willioms 3720 days agoPresented July 30, 2014 and covering: an NCBI BLAST AMI at Amazon Web Services; introduction to AWS and setting up an instance; running command line BLAST and using the BLAST URL API via the AMI; and answers to attendee questions.Bioinformatics Made Easy Search: Bioinformatics tools and run genomic analysis in the cloud
By Rahul Nayak 3382 days agohttps://insidedna.me/ - InsideDNA makes hundreds of bioinformatics tools immediately available to run via an easy-to-use web interface and allows an accurate search across all functions, tools and pipelines. With InsideDNA, you can upload and store your own...Arvados
By Martin Jones 3715 days agohttps://arvados.org/ - Arvados is a free and open source bioinformatics platform for genomic and biomedical data. User can Store | Organize | Compute | Share the data for free.Dynamic Programming Alignment
By Jitendra Narayan 4109 days agolecture 9, Chem. C100, Spring 2013, UCLASATSUMA : Highly sensitive whole-genome synteny alignments.
By Jit 3115 days agosatsuma.sourceforge.net - Satsuma is a whole-genome synteny alignment program. It takes two genomes, computes alignments, and then keeps only the parts that are orthologous, i.e. following the conserved order and orientation of features, such as protein coding genes,...YAHA
By Jit 2863 days agowww.ncbi.nlm.nih.gov - YAHA, a fast and flexible hash-based aligner. YAHA is as fast and accurate as BWA-SW at finding the single best alignment per query and is dramatically faster and more sensitive than both SSAHA2 and MegaBLAST at finding all possible alignments....GenomeComp
By Jit 2834 days agowww.mgc.ac.cn - GenomeComp is a tool for summarizing, parsing and visualizing the genome wide sequence comparison results derived from voluminous BLAST textual output, so as to locate the rearrangements, insertions or deletions of genome segments between species or...Cgaln
By Jit 2830 days agowww.iam.u-tokyo.ac.jp - Cgaln (Coarse grained alignment) is a program designed to align a pair of whole genomic sequences of not only bacteria but also entire chromosomes of vertebrates on a nominal desktop computer. Cgaln performs an alignment job in two steps, at the...
