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It is a desktop application written in the programming language Java. geWorkbench uses a component architecture. As of 2016 [update] , there are more than 70 plug-ins [ 3 ] available, providing for the visualization and analysis of gene expression , sequence, and structure data.
Galaxy [2] is an open-source scientific workflow system designed to make research accessible, reproducible, and transparent. Originally developed for computational biology, Galaxy has evolved into a domain-agnostic framework utilized across various scientific disciplines.
Indexes the genome with periodic seeds to quickly find alignments with full sensitivity up to four mismatches. It can map Illumina and SOLiD reads. Unlike most mapping programs, speed increases for longer read lengths. Yes Free, GPL [49] PRIMEX Indexes the genome with a k-mer lookup table with full sensitivity up to an adjustable number of ...
Free, public domain: No MSDOS, VMS Official website: CINEMA No, but can read-show 2D structure annotations ClustalW No Dotplot, 6 frame translation, Blast Nexus, MSF, Clustal, FASTA, PHYLIP, PIR, PRINTS Proprietary, freeware: No Cross-platform -Mac OS, Linux, Windows Official website: CLC viewer (free version) Commercial version only
The International Nucleotide Sequence Database Collaboration (INSDC) consists of a joint effort to collect and disseminate databases containing DNA and RNA sequences. [1] It involves the following computerized databases : NIG 's DNA Data Bank of Japan ( Japan ), NCBI 's GenBank ( USA ) and the EMBL - EBI 's European Nucleotide Archive ( EMBL ).
Linux, macOS, Windows: BSD: Laura Luebbert and Lior Pachter: GROMACS: Molecular dynamics package mainly designed for simulations of proteins, lipids and nucleic acids. Linux, macOS, Windows: Common Public 1.0 GenoViz Integrated Genome Browser: Java-based desktop genome browser: Linux, macOS, Windows: Common Public 1.0 GenoViz InterMine
Fast detection of coding regions in short genome sequences: Dragon Promoter Finder Program to recognize vertebrate RNA polymerase II promoters: Vertebrates [7] EasyGene: The gene finder is based on a hidden Markov model (HMM) that is automatically estimated for a new genome. Prokaryotes [8] [9] EuGene: Integrative gene finding: Prokaryotes ...
Integrated Genome Browser (IGB) (pronounced Ig-Bee) [1] is an open-source genome browser, a visualization tool used to observe biologically-interesting patterns in genomic data sets, including sequence data, gene models, alignments, and data from DNA microarrays.