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2. List of sequence alignment software - Wikipedia

   en.wikipedia.org/wiki/List_of_sequence_alignment...

   Combines DNA and Protein alignment, by back translating the protein alignment to DNA. DNA/Protein (special) Local or global: Wernersson and Pedersen: 2003 (newest version 2005) SAGA Sequence alignment by genetic algorithm: Protein: Local or global: C. Notredame et al. 1996 (new version 1998) SAM Hidden Markov model: Protein: Local or global: A ...

3. List of alignment visualization software - Wikipedia

   en.wikipedia.org/wiki/List_of_alignment...

   This page is a subsection of the list of sequence alignment software. Multiple alignment visualization tools typically serve four purposes: Aid general understanding of large-scale DNA or protein alignments; Visualize alignments for figures and publication; Manually edit and curate automatically generated alignments; Analysis in depth

4. HMMER - Wikipedia

   en.wikipedia.org/wiki/HMMER

   A profile HMM modelling a multiple sequence alignment. HMMER is a free and commonly used software package for sequence analysis written by Sean Eddy. [2] Its general usage is to identify homologous protein or nucleotide sequences, and to perform sequence alignments.

5. UGENE - Wikipedia

   en.wikipedia.org/wiki/UGENE

   UGENE is computer software for bioinformatics. [1] [2] It works on personal computer operating systems such as Windows, macOS, or Linux.It is released as free and open-source software, under a GNU General Public License (GPL) version 2.

6. List of open-source bioinformatics software - Wikipedia

   en.wikipedia.org/wiki/List_of_open-source...

   List of sequence alignment software; List of open-source healthcare software; List of biomedical cybernetics software; List of freeware health software; List of genetic engineering software; List of molecular graphics systems; List of systems biology modelling software; Comparison of software for molecular mechanics modeling

7. Yass (software) - Wikipedia

   en.wikipedia.org/wiki/Yass_(software)

   YASS (Yet Another Similarity Searcher) [1] [2] is a free software, [3] pairwise sequence alignment software for nucleotide sequences, that is, it can search for similarities between DNA or RNA sequences. YASS accepts nucleotide sequences in either plain text or the FASTA format and the output format includes the BLAST tabular output.

8. Bowtie (sequence analysis) - Wikipedia

   en.wikipedia.org/wiki/Bowtie_(sequence_analysis)

   Bowtie is a software package commonly used for sequence alignment and sequence analysis in bioinformatics. [3] The source code for the package is distributed freely and compiled binaries are available for Linux, macOS and Windows platforms. As of 2017, the Genome Biology paper describing the original Bowtie method has been cited more than ...

9. Comparison of nucleic acid simulation software - Wikipedia

   en.wikipedia.org/wiki/Comparison_of_nucleic_acid...

   Generates models for unusual DNA, RNA: Free, GPL: New Jersey University: ... List of sequence alignment software; List of gene prediction software;