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Biopython: freely available Python tools for computational molecular biology and bioinformatics.
Bioinformatics. 2009 Jun 1;25(11):1422-3. doi: 10.1093/bioinformatics/btp163. Epub 2009 Mar 20.
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PDB file parser and structure class implemented in Python.
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BioRuby: bioinformatics software for the Ruby programming language.
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Sharing Programming Resources Between Bio* Projects.
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InterMine: a flexible data warehouse system for the integration and analysis of heterogeneous biological data.
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A Python package for parsing, validating, mapping and formatting sequence variants using HGVS nomenclature.
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BioJava: an open-source framework for bioinformatics.
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BioSmalltalk: a pure object system and library for bioinformatics.
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Structural DNMT-nucleosome contacts are related to DNA methylation patterns.
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Multimodal Deep Learning for Generating Potential Anti-Dengue Peptides.
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Deciphering enzymatic potential in metagenomic reads through DNA language models.
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Evolutionary trajectory estimation via replication simulation of coronavirus spike gene based on random mutation and similarity-based selection.
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Transcriptional Interference Gates Monogenic Odorant Receptor Expression in Ants.
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TrueProbes: Quantitative Single-Molecule RNA-FISH Probe Design Improves RNA Detection.
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Proteo-transcriptomic reprogramming and resource reallocation define the aging mammalian brain.
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genepop'007: a complete re-implementation of the genepop software for Windows and Linux.
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BioJava: an open-source framework for bioinformatics.
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The Universal Protein Resource (UniProt).
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xBASE, a collection of online databases for bacterial comparative genomics.
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GenomeDiagram: a python package for the visualization of large-scale genomic data.
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SIMCOAL 2.0: a program to simulate genomic diversity over large recombining regions in a subdivided population with a complex history.
Bioinformatics. 2004 Oct 12;20(15):2485-7. doi: 10.1093/bioinformatics/bth264. Epub 2004 Apr 29.
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Open source clustering software.
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