Neel
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Miropeats: discovers regions of sequence similarity amongst any set of DNA sequences
By Poonam Mahapatra 1894 days agowww.littlest.co.uk - Miropeats discovers regions of sequence similarity amongst any set of DNA sequences and then presents this similarity information graphically. Sequence similarity searching is a very general tool that forms the basis of many different biological...IgBLAST 1.17 is now available with improved identification of productive V gene sequences
By Jit 1461 days agoIgBLAST 1.17 is now available with improved identification of productive V gene sequencesSteps to find palindrome in genomes !
By BioStar 603 days agoPalindromes are sequences of nucleotides that read the same backward as forward.Smash: An alignment-free method to find and visualise rearrangements between pairs of DNA sequences
By Jit 3111 days agobioinformatics.ua.pt - Smash is a completely alignment-free method/tool to find and visualise genomic rearrangements. The detection is based on conditional exclusive compression, namely using a FCM (Markov model), of high context order (typically 20). For...Spines
By Jit 2895 days agowww.broadinstitute.org - Spines is a collection of software tools, developed and used by the Vertebrate Genome Biology Group at the Broad Institute. It provides basic data structures for efficient data manipulation (mostly genomic sequences, alignments, variation...DIAMOND
By Jit 2745 days agogithub.com - DIAMOND is a sequence aligner for protein and translated DNA searches and functions as a drop-in replacement for the NCBI BLAST software tools. It is suitable for protein-protein search as well as DNA-protein search on short reads and longer...progressiveCactus
By Abhimanyu Singh 2724 days agogithub.com - Progressive Cactus is a whole-genome alignment package. Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules https://github.com/glennhickey/progressiveCactusSIMA C++ Implementation: Simultaneous Multiple Alignment of LC/MS Peak Lists
By Neel 2535 days agohciweb.iwr.uni-heidelberg.de - This is the c++ implementation for SIMA - Simultaneous Multiple Alignment of LC/MS Peak Lists. The package contains C++ source code as well as two binary files. The latter were tested under various operating systems, including Windows XP SP3 32bit,...LSC: Improving PacBio Long Read Accuracy by Short Read Alignment
By Abhimanyu Singh 2248 days agowww.healthcare.uiowa.edu - Added Command line argument support. Multi-stage execution modes. Support for parallelization. Now execution proceeds in batches of long reads the size of which can be set by --long_read_batch_size N. Better compressed intermediate files. Added...DAVI: Deep learning-based tool for alignment and single nucleotide variant identification
By Jit 1326 days ago Comments (1)github.com - DAVI consists of models for both global and local alignment and for variant calling. We have evaluated the performance of DAVI against existing state-of-the-art tool sets and found that its accuracy and performance is comparable to existing tools...
