Curated collection of software, databases, and tools for research
This page provides a comprehensive list of software tools, databases, and resources that I frequently use in my research. These tools span molecular biology, bioinformatics, data analysis, and scientific writing domains.
An AI tool for literature reviews that simplifies reading, extracts key insights, enhances writing, and guides you through complex topics with ease.
Visit WebsiteA free search engine for research papers with citation metrics, altmetrics, and a user-friendly design for exploring scholarly works.
Visit WebsiteAn AI-powered platform for discovering and analyzing academic papers, offering deep insights into scholarly literature.
Visit WebsiteA research tool with 270+ million papers and an AI assistant, Copilot, providing summaries, explanations, and answers to aid comprehension.
Visit WebsiteAn AI tool designed to streamline systematic reviews by predicting the most relevant articles based on your criteria, reducing the number of studies you need to screen.
Visit WebsiteAn AI research assistant that helps in literature review by finding relevant papers, summarizing findings, and extracting key information to answer specific research questions.
Visit WebsiteA tool that allows researchers to create collections of papers and visualize the connections between them, aiding in the discovery of related work and the development of comprehensive literature reviews.
Visit WebsiteAn AI-powered search engine that finds and summarizes research papers, helping users quickly understand the consensus in scientific literature on a given topic.
Visit WebsiteA tool that helps you find the most relevant journals for your research based on article titles or abstracts.
Visit WebsiteA comprehensive list of journals indexed by Clarivate, offering essential information for journal selection.
Visit WebsiteAllows you to compare journals indexed in Scopus based on various metrics like impact factor and citation counts.
Visit WebsiteA tool to help you identify the best journals for submitting your manuscript based on keywords or topics.
Visit WebsiteHelps you find Elsevier journals that match your research topics and manuscript.
Visit WebsiteThis tool suggests journals from Taylor & Francis based on the title and abstract of your manuscript.
Visit WebsiteA resource to help you evaluate the trustworthiness of journals and avoid predatory publishers.
Visit WebsiteA tool that helps you find Wiley journals by matching your manuscript with relevant journals.
Visit WebsiteProvides a directory of journals and their evaluation metrics, helping you find suitable journals for your research.
Visit WebsiteA tool for evaluating journals based on multiple performance metrics and journal reputation.
Visit WebsiteSuggests Sage journals that are a good fit for your research topic using your manuscript title and abstract.
Visit WebsiteA package for data manipulation, offering functions like filtering, selecting, and summarizing data. Part of the tidyverse.
Visit WebsiteFocuses on tidying data, such as reshaping and separating columns. Works well with other tidyverse packages.
Visit WebsiteA collection of R packages (e.g., ggplot2, dplyr, tidyr, purrr) for consistent data analysis and visualization.
Visit WebsiteUsed for creating customizable summary tables for data frames and statistical models.
Visit WebsiteA powerful visualization package implementing the "grammar of graphics" to create complex plots.
Visit WebsiteEnhances ggplot2 plots with additional themes, color palettes, and customization options.
Visit WebsiteProvide color palettes for data visualization, ideal for maps and charts.
Visit WebsiteFoundation for scientific computing, offering support for multidimensional arrays and mathematical operations.
Visit WebsiteSimplifies data wrangling and analysis, providing powerful tools for handling structured data.
Visit WebsiteEnhances Matplotlib with advanced statistical visualizations and attractive aesthetics.
Visit WebsiteA versatile library for machine learning, offering tools for classification, regression, and clustering.
Visit WebsiteProvides tools for image manipulation, especially useful in life sciences.
Visit WebsiteGoal: Retrieve sequences, identify homologs, conserved motifs, and functional domains.
Provides genomic, transcript, and protein sequences for multiple organisms.
Visit WebsiteIdentifies similar DNA, RNA, or protein sequences to predict function and evolutionary relationships.
Visit WebsiteGoal: Build genomes from reads, align sequences, and identify genes.
Goal: Explore genomes, annotations, and sequencing data visually.
Interactive genome visualization with extensive annotation tracks.
Visit WebsiteDesktop tool for inspecting alignments and variants.
Visit WebsiteGoal: Measure gene expression and analyze RNA structures.
Goal: Analyze gene expression at single-cell or tissue resolution.
Goal: Model, refine, and visualize protein 3D structures.
Goal: Identify druggable sites and design small molecules.
Goal: Predict ligand binding and study molecular interactions.
Goal: Evaluate drug-likeness, pharmacokinetics, and toxicity.
Goal: Interpret molecular interactions and biological pathways.
Visualizes and analyzes biological networks such as protein–protein interactions.
Visit WebsiteGoal: Predict immune epitopes and simulate vaccine constructs or cloning.
Central database for C. elegans genetics, genomics, phenotypes, and annotations.
Visit WebsiteOpen-access, peer-reviewed resource on C. elegans biology and research methods.
Visit WebsiteAnatomical and structural reference with detailed imaging and connectivity maps.
Visit WebsiteRepository for wild isolates, natural variation, and genome-wide association mapping.
Visit WebsiteProvides C. elegans strains, stocks, and genetic resources.
Visit WebsiteComputational project simulating C. elegans anatomy, connectome, and behavior.
Visit WebsiteLiterature search engine for full-text publications on C. elegans.
Visit WebsiteNeural wiring and connectivity data for the full worm nervous system.
Visit WebsiteA comprehensive nucleotide sequence database with annotated genetic information.
Visit WebsiteProvides genome data, annotations, and comparative genomics tools.
Visit WebsiteInteractive genome visualization with integrated annotation tracks.
Visit WebsiteDNA Data Bank of Japan, part of the international nucleotide sequence collaboration.
Visit WebsiteA large-scale catalog of human genetic variation across populations.
Visit WebsiteEMBL-EBI's archive of functional genomics experiments and gene expression data.
Visit WebsiteGenotype-Tissue Expression project linking genetic variation with tissue-specific expression.
Visit WebsiteGlobal survey on social, cultural, and health-related values.
Visit WebsiteHosted by the National Institute of Allergy and Infectious Diseases (NIAID), BioArt provides over 2,000 science and medical visuals, including vectors, icons, and brushes, created by professional illustrators.
Visit WebsiteBioicon offers a collection of high-quality biological icons and illustrations to enhance scientific presentations and educational materials.
Visit WebsiteBioRender's scientific illustration software includes an activity sheet with editable lab icons, enabling users to create publication-quality figures using pre-made icons and templates.
Visit WebsiteSciDraw is a platform that offers a variety of scientific drawings, including vectors of cells, animals, and laboratory equipment, contributed by the scientific community.
Visit WebsiteIt offers over 3,000 free, high-quality medical illustrations suitable for publications and presentations. The collection encompasses various medical specialties, including anatomy, cellular biology, and general medical items.
Visit WebsiteLabIcons offers free drawings of laboratory objects to improve knowledge communication in science and education, including clip arts of microcentrifuge tubes, plasticware, instruments, equipment, and glassware.
Visit WebsiteYour expertise and insights are invaluable to improving these resources. If you notice any areas for enhancement, have suggestions for additional tools, or possess specialized knowledge that could benefit the scientific community, I warmly welcome your feedback.
Whether it's recommending a new tool, suggesting improvements to existing resources, or sharing alternative approaches, your contributions help ensure these resources remain comprehensive, current, and valuable for researchers worldwide.
Share Your Expertise