UGENE!

UGENE alternatives

  • Vector NTI

  • Vector NTI is a bioinformatics software package. The current versions are v11.5.1 for Windows/PCs and v7.1 for Macs, but only supporting Mac OS X v10.3 (Panther).Features create, annotate, analyse, and share DNA/protein sequences perform and save BLAST searches design primers for PCR, cloning, sequencing or hybridisation experiments plan cloning and run gels in silico align multiple protein or DNA sequences search NCBI’s Entrez, view, and save DNAs, proteins, and citations edit chromatogram data, assemble into contigsSee also Bioinformatics Vector (molecular biology), Vector DNA, Cloning vector, Expression vector Restriction map Computational biology List of open source bioinformatics software »

    tags: biology dna plasmid
  • Geneious

  • Geneious combines all the major DNA and protein sequence analysis tools into one revolutionary software solution!

    tags: biology dna sequence-alignment visual-editing
  • SnapGene Viewer

  • SnapGene is the first molecular biology software that is easier to use than pen and paper. Now every DNA construct made in your lab can be documented in a rich electronic format… and thanks to the free SnapGene Viewer, the files can be shared with colleagues around the world.

    tags: biology dna plasmid dna-editor pcr
  • Archaeopteryx

  • Archaeopteryx is a software tool for the visualization, analysis, and editing of potentially large and highly annotated phylogenetic trees. Archaeopteryx (the successor to ATV) is entirely written in the Java programming language (it is based on the forester libraries).

    tags: biology sequence phylogeny
  • Clustal X

  • Multiple sequence alignment software.

    tags: alarm dna sequencer sequence-alignment alignment
  • GeneDoc

  • A full featured multiple sequence alignment editor, analyser and shading utility for Windows.

    tags: editors dna sequencer discontinued protein
  • Rasmol

  • RasMol is a computer program written for molecular graphics visualization intended and used primarily for the depiction and exploration of biological macromolecule structures, such as those found in the Protein Data Bank. It was originally developed by Roger Sayle in the early 90s.Historically, it was an important tool for molecular biologists since the extremely optimized program allowed the software to run on (then) modestly powerful personal computers. Before RasMol, visualization software ran on graphics workstations that, due to their expense, were less accessible to scholars. RasMol has become an important educational tool as well as continuing to be an important tool for research in structural biology.RasMol has a complex version history. Starting with the series of 2.7 versions, RasMol is licensed under a dual license (GPL or custom license RASLIC).RasMol includes a language (for selecting certain protein chains, or changing colors etc.). Jmol and Sirius has incorporated the RasMol scripting language into its commands.Protein Databank (PDB) files can be downloaded for visualization from members of the Worldwide Protein Data Bank (wwPDB). These have been uploaded by researchers who have characterized the structure of molecules usually by X-ray crystallography, NMR spectroscopy or electron microscopy. »

    tags: visualization chemistry proteins computational-chemistry
  • Ridom TraceEdi

  • Ridom TraceEdit is a cross-platform graphical DNA trace viewer and editor. TraceEdit displays the chromatogram files from Applied Biosystems automated sequencers and files in the Staden SCF format. Incorrect base calls can be edited and saved. TraceEdit is freely available and designed to operate on Windows and UNIX platforms.DNA sequencing has been the standard against which other types of DNA testing is compared. Major advances in DNA sequencing include the development of automated sequencers, discovery of fluorescent terminator chemistry, and cycle sequencing. These developments have made sequencing easier to perform and therefore more widely used. Currently, sequencing is used to identify microbial drug resistance mutations, cancer predisposition, somatic mutations, and genetic diseases. With the sequencing of the human genome and new era of molecular , one can only expect the use of DNA sequencing to increase. Therefore, an increasing number of people need to check the evidence for individual DNA sequences by inspecting the chromatograms (more commonly known as trace files) from which the base calls were deduced. Trace files are stored in proprietary formats, such as those of ABI, or public formats such as SCF. »

    tags: dna discontinued sequence chromatogram
  • TreeView X

  • TreeView X is an open source program to display phylogenetic trees on Linux, Unix, Mac OS X, and Windows platforms. It can read and display NEXUS and Newick format tree files (such as those output by PAUP*, Clustal X, TREE-PUZZLE, and other programs). It has a subset of the functionality of the version of TreeView available for the Mac Classic and Windows (it is roughly equivalent to version 0.95 of TreeView).

    tags: biology tree sequence phylogeny
  • CLC bio

  • DNA analysis for the workbench

    tags: dna bioinformatics dna-sequences dna-analysis
  • DNASTAR Lasergene

  • The DNASTAR Lasergene package is the most robust of our software offerings, and includes all of the applications from our genomics, structural biology, molecular biology, and cloning suites.

    tags: biology dna molecular-biology dna-sequences genomics
  • DNApy

  • A free and open source GUI toolkit for DNA editing - written in python

    tags: Portable sciences biology dna bioinformatics
  • Chromas

  • Two software applications are available from Technelysium: Chromas and ChromasPro.

    tags: batch-processing dna-editor dna-sequences genetic
  • BioEdit

  • BioEdit is a biological sequence alignment editor written for Windows 95/98/NT/2000/XP/7. An intuitive multiple document interface with convenient features makes alignment and manipulation of sequences relatively easy on your desktop computer. Several sequence manipulation and analysis options and links to external analysis programs facilitate a working environment which allows you to view and manipulate sequences with simple point-and-click operations.

    tags: Discontinued dna plasmid sequence-alignment dna-editor