Basic Research Software

Adobe: Acrobat, Photoshop, Illustrator

Institutions: DFCI

Access and support: Adobe request

DFCI now has an enterprise-level licensing for Acrobat, Photoshop, and Illustrator, direct from Adobe. More information can be found on DFCI Online here.
 

ChemDraw

Users: Basic researchers

Institutions: DFCI

Access and support: RCS Wiki: Chemdraw

ChemDraw is a molecule editor and chemistry communication suite for the transformation of chemical drawings into shareable chemical knowledge.

DNASTAR Lasergene

Genomic, structural biology, molecular biology, and cloning suite applications

Users: Basic researchers

Institutions: DFCI

Access and support: RCS Wiki: DNASTAR

The DNASTAR Lasergene package is the most robust software offering from DNASTAR and includes genomics, structural biology, molecular biology, and cloning suites applications.
You can find more training and tutorial information from the vendor tutorial library

eLabJournal: Electronic Lab Notebook (ELN)

Enter data, protocols, observations, notes, graphics, and much more using your computer or mobile device

Users: Basic researchers

Institutions: DFCI

Access and support: eLabJournal User Documentation

eLabJournal is an Electronic Lab Notebook (ELN) application. It’s used in the lab to efficiently organize research data, collaborate and share information, and streamline communication. It is an intuitive electronic notebook that allows users to log data by adding text, protocols, drawings, images, and tables as well as setup sample types, storage units, and other relevant experiment sample information. eLab includes regulatory and compliance features such as electronic signatures, audit trails, and FDA compliance.

EndNote

Manage bibliographies, citations, references

Users: Basic researchers

Institutions: DFCI

Access and support: RCS Wiki: EndNote

EndNote is a product from Clarivate Analytics and is the industry-standard software tool for publishing and managing bibliographies, citations, and references. More information on EndNote can be found here. You can also find training materials on the vendor website: EndNote X9 for WindowsEndNote X9 for MacEndNote X8EndNote X7

Note: EndNote is not compatible with Dropbox or any cloud-sharing app, like Google Drive. Use EndNote Sync to create a version of your library in the cloud (see EndNote menu, Preferences, Sync). You can find more information on this and other topics at the EndNote community forums.

FileMaker Pro

Tool used to create custom apps

Institutions: DFCI

Access and support: FileMaker Pro 18 download

FileMaker Pro Advanced includes a set of advanced tools to help you design and develop custom apps faster and easier. Plus, you’ll get robust analysis capabilities, powerful diagnostic tools, and much more.
Partners offers FileMaker Pro free to clients as long as they host your database. 

Galaxy

Scientific workflow, data integration, and analysis

Users: Basic researchers

Institutions: DFCI

Access and support: Learn Galaxy

Galaxy is a scientific workflow, data integration, and analysis platform that aims to make computational biology accessible to research scientists who do not have computer programming experience. Although it was initially developed for genomics research, it is largely domain agnostic and is now used as a general bioinformatics workflow management system. To learn more about NGS Analysis with Galaxy and IGV, please visit RCApps.

GenePattern

Genomic analysis tools

Users: Basic researchers

Institutions: DFCI

Access and support: GenePattern

GenePattern is a powerful scientific workflow system that provides access to more than 220 genomic analysis tools. You can use the analysis tools as building blocks to design sophisticated analysis pipelines that capture the methods, parameters, and data used to produce analysis results. Pipelines can be used to create, edit, and share reproducible in silico results. For more information, please visit the Bioinformatics Service page.

GraphPad Prism

Scientific graphing, nonlinear regression, statistics, data organization

Users: Basic researchers

Institutions: DFCI

Access and support: RCS Wiki: GraphPad Prism

GraphPad Prism, available for both PCs and Macs, is a powerful statistical tool that combines scientific graphing, nonlinear regression, understandable statistics, and data organization

Lab Websites

Develop and maintain lab websites

Users: Basic researchers, Research staff

Institutions: DFCI

DFCI's Communications Department offers a Lab Website Program (LWP) at no cost, utilizing DFCI branded templates designed for non-technical professionals to learn and use.
Contact to get started: Luise Dittrich - Project Manager, LWP.

Matlab

MatLab will no longer be supported at the enterprise or department level

Matlab will no longer be supported and new licenses are not available. Existing licenses will be honored.
Here are some links to similar programming tools.  Please understand that we are not able to provide support for these applications and they are just suggestions for your information:

Qlucore Omics Explorer

Visualize, QC, apply statistics, and create publication-ready graphics

Users: Basic researchers

Institutions: DFCI

Access and support: Qlucore

Qlucore Omics Explorer facilitates a dynamic, visualization-guided analysis of OMICs data, applicable to various phases of a discovery cycle. What differentiates Qlucore is the combination of speed, advanced analytics, seamless workflow, and simplicity. With Qlucore you can visualize, QC, apply statistics, and create publication-ready graphics, such as 3D Principal Component Analysis, heat maps, and various 2D plots. This tool suite empowers researchers to participate in their data analysis, exponentially shortening time to result and biological insight while improving accuracy of the findings.

Sequencher

DFCI hosts a set of Sequencher site licenses for use by the DFCI community

Users: Basic researchers

Access and support: RCS Wiki: Sequencher

Sequencher empowers the benchtop scientist by bringing the latest peer-reviewed NGS algorithms out of the command line and into an intuitive point and click interface. Whether performing reference-guided alignments, de novo assembly, variant calling, or SNP analyses.

UCSC Genome Browser

Interactive website offering access to genome sequence data

Users: Basic researchers

Institutions: DFCI

Access and support: Genome Browser

UCSC Genome Browser is an interactive website offering access to genome sequence data from a variety of vertebrate and invertebrate species and major model organisms, integrated with a large collection of aligned annotations. The Browser is a graphical viewer optimized to support fast, interactive performance. It is an open-source, web-based tool suite built on top of a MySQL database for rapid visualization, examination, and querying of data at many levels. 

The UCSC Genome Browser is developed and maintained by the Genome Bioinformatics Group, a cross-departmental team within the UCSC Genomics Institute. For more information about Genome Browser, you can visit the UCSC website and FAQs. You can access the Genome Browser via DFCI gateway

Visio

Diagramming and vector graphics app often used to map workflows

Institutions: DFCI

Access and support: Microsoft Office/Office 365 Requests

Visio licenses are obtained by submitting an IS Service Desk request.

Websites for research and clinical programs

Graphic design, content, programming, social media, and hosting

Users: Basic researchers, Clinical researchers

Institutions: DF/HCC, DFCI, Outside participating sites

DFCI’s Health Communication Core develops websites ranging from simple, static sites to complex, interactive web applications. The HCC creative team provides professional writing, graphic design, programming, social media, and strategy development services for:

  • Research recruitment/retention
  • Online interventions
  • Decision aid development
  • Research dissemination
  • Awareness and outreach

Contact health_communication@dfci.harvard.edu to explore how HCC can help strengthen your online presence.