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maf2synteny
By Abhimanyu Singh 3216 days agogithub.com - A tool for converting for recovering synteny blocks from multiple alignment (in MAF fromat) This tool is a standalone version of Ragout module [http://fenderglass.github./Ragout]PhyloGrapher - Graph Visualization Tool
By Jit 2922 days agowww.atgc.org - PhyloGrapher is a program designed to visualize and study evolutionary relationships within families of homologous genes or proteins (elements). PhyloGrapher is a drawing tool that generates custom graphs for a given set of elements....G-NEST: The Gene NEighborhood Scoring Tool
By Neel 1989 days agogithub.com - The Gene NEighborhood Scoring Tool (G-NEST) combines genomic location, gene expression, and evolutionary sequence conservation data to score putative gene neighborhoods across all window sizes. Primary author of final code = William F. Martin....DAVI: Deep learning-based tool for alignment and single nucleotide variant identification
By Jit 1818 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...Perlbrew: admin-free perl installation management tool.
By Jit 3161 days agohttps://perlbrew.pl/ - perlbrew is an admin-free perl installation management tool. The latest version is 0.79, read the release note: Release 0.79. Copy & Paste this line into your terminal: \curl -L https://install.perlbrew.pl | bash Or, if your...PLAST: A fast, accurate and NGS scalable bank-to-bank sequence similarity search tool
By Jit 3019 days agohttps://plast.inria.fr/ - PLAST is a fast, accurate and NGS scalable bank-to-bank sequence similarity search tool providing significant accelerations of seeds-based heuristic comparison methods, such as the Blast suite of algorithms. Relying on unique software architecture,...CAMSA :: a tool for Comparative Analysis and Merging of Scaffold Assemblies
By Rahul Nayak 2991 days agohttps://cblab.org/camsa/ - CAMSA – is a tool for Comparative Analysis and Merging of Scaffold Assemblies, distributed both as a standalone software package and as Python library under the MIT license. Main features: works with any number of...“One code to find them all”: a perl tool to conveniently parse RepeatMasker output files
By Poonam Mahapatra 2834 days agodoua.prabi.fr - One code to find them all is a set of perl scripts to extract useful information from RepeatMasker about transposable elements, retrieve their sequences and get some quantitative information. Assemble RepeatMasker hits into complete TE copies,...FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
By Neel 2766 days agogithub.com - FMLRC, or FM-index Long Read Corrector, is a tool for performing hybrid correction of long read sequencing using the BWT and FM-index of short-read sequencing data. Given a BWT of the short-read sequencing data, FMLRC will build an FM-index and use...KOALA: KEGG's internal annotation tool for K number assignment of KEGG GENES using SSEARCH...
By Abhimanyu Singh 2642 days agowww.kegg.jp - KOALA (KEGG Orthology And Links Annotation) is KEGG's internal annotation tool for K number assignment of KEGG GENES using SSEARCH computation. BlastKOALA and GhostKOALA assign K numbers to the user's sequence data...
