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2. List of sequence alignment software - Wikipedia

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

   This list of sequence alignment software is a compilation of software tools and web portals used in pairwise sequence alignment ... Free, GPL2 ALLALIGN For DNA, RNA ...

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. List of open-source bioinformatics software - Wikipedia

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

   Algorithm and program for comparing primary biological sequence information, including DNA and protein sequences. Cross-platform: Public domain: National Center for Biotechnology Information: CP2K: Perform atomistic simulations of solid state, liquid, molecular and biological systems, written in Fortran 2003. ? GPL and LGPL: Free open source ...

5. 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.

6. UGENE - Wikipedia

   en.wikipedia.org/wiki/UGENE

   The software supports the following features: Create, edit, and annotate nucleic acid and protein sequences; Fast search in a sequence; Multiple sequence alignment: Clustal W and O, MUSCLE, Kalign, MAFFT, T-Coffee; Create and use shared storage, e.g., lab database

7. 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 ...

8. 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.

9. EMBOSS - Wikipedia

   en.wikipedia.org/wiki/EMBOSS

   EMBOSS is a free c software analysis package developed for the needs of the molecular biology and bioinformatics user community. [1] The software automatically copes with data in a variety of formats and even allows transparent retrieval of sequence data from the web.