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2. List of open-source bioinformatics software - Wikipedia

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

   Centralized web application that provides data format transformations and facilitates connections with other bioinformatics tools Web browser: LGPL: Broad Institute, collaborative project GENtle: An equivalent to the proprietary Vector NTI, a tool to analyze and edit DNA sequence files Linux, macOS, Windows: GPL: Magnus Manske: gget

3. BioPHP - Wikipedia

   en.wikipedia.org/wiki/BioPHP

   BioPHP is a collection of open-source PHP code, with classes for DNA and protein sequence analysis, alignment, database parsing, and other bioinformatics tools. BioRuby is released under the GNU GPL version 2 licence [1] and is one of a number of Bio* projects, designed to reduce code duplication. [2]

4. FASTA - Wikipedia

   en.wikipedia.org/wiki/FASTA

   FASTA, published in 1987, added the ability to do DNA:DNA searches, translated protein:DNA searches, and also provided a more sophisticated shuffling program for evaluating statistical significance. [2] There are several programs in this package that allow the alignment of protein sequences and DNA sequences.

5. List of gene prediction software - Wikipedia

   en.wikipedia.org/wiki/List_of_gene_prediction...

   Links ORFs in complete genomes to protein 3D structures: Prokaryotes, Eukaryotes [16] geneid: Program to predict genes, exons, splice sites, and other signals along DNA sequences: Eukaryotes [17] GeneParser: Parse DNA sequences into introns and exons: Eukaryotes [18] GeneMark: Family of self-training gene prediction programs: Prokaryotes ...

6. List of protein subcellular localization prediction tools

   en.wikipedia.org/wiki/List_of_protein_sub...

   Protegen is a web-based database and analysis system that curates, stores and analyzes protective antigens. Protegen includes basic antigen information and experimental evidence curated from peer-reviewed articles. It also includes detailed gene/protein information (e.g. DNA and protein sequences, and COG classification).

7. 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 ...

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9. List of alignment visualization software - Wikipedia

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

   Align DNA, RNA, protein, or DNA + protein sequences via a variety of pairwise and multiple sequence alignment algorithms, generate phylogenetic trees to predict evolutionary relationships, explore sequence tracks to view GC content, gap fraction, sequence logos, translation ABI, DNA Multi-Seq, FASTA, GCG Pileup, GenBank, Phred