Tag: Engine

Snakemake 6.4.1 – Scalable Bioinformatics Workflow Engine

Snakemake 6.4.1

:: DESCRIPTION

Snakemake is a workflow engine and language. It aims to reduce the complexity of creating workflows by providing a fast and comfortable execution environment, together with a clean and modern domain specific specification language (DSL) in python style.

::DEVELOPER

Johannes Köster

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows/Linux/MacOsX
  • Python

:: DOWNLOAD

 Snakemake

:: MORE INFORMATION

Citation

Snakemake–a scalable bioinformatics workflow engine.
Köster J, Rahmann S.
Bioinformatics. 2012 Oct 1;28(19):2520-2.

GIVE v0.2.0 – Genomic Interaction Visualization Engine

GIVE v0.2.0

:: DESCRIPTION

GIVE is an open source programming library that allows anyone without much programming experience to build custom genome browser websites or apps. With a few lines of codes, one can set up GIVE service on a local machine, manage custom data and build an interactive genome browser.

::DEVELOPER

Zhong Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows
  • Web Server

:: DOWNLOAD

GIVE

:: MORE INFORMATION

Citation

GIVE: portable genome browsers for personal websites.
Cao X, Yan Z, Wu Q, Zheng A, Zhong S.
Genome Biol. 2018 Jul 18;19(1):92. doi: 10.1186/s13059-018-1465-6.

Madeline 2.0 – Pedigree Drawing Engine

Madeline 2.0

:: DESCRIPTION

Madeline is a pedigree drawing program for use in linkage and family-based association studies. The program is designed to handle large and complex pedigrees with an emphasis on readability and aesthetics. For complex pedigrees, we use a hybrid algorithm in which consanguinous loops are drawn as cyclic graphs whenever possible, but we resort to acyclic graphs when matings can no longer be connected without line crossings

::DEVELOPER

Dr. Julia Richards Lab at the Kellogg Eye Center, University of Michigan

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

 Madeline

:: MORE INFORMATION

Citation:

Madeline 2.0 PDE: A new program for local and web-based pedigree drawing
Edward H. Trager; Ritu Khanna; Adrian Marrs; Lawrence Siden; Kari E.H. Branham; Anand Swaroop; Julia E. Richards
Bioinformatics 2007; doi: 10.1093/bioinformatics/btm242

HIPPIE – Protease Inhibitor engine

HIPPIE

:: DESCRIPTION

HIPPIE (Hybrid Inhibitors-Proteases Proteases-Inhibitors Engine) is a web server computational approach for detecting peptidases and their specific inhibitors.

::DEVELOPER

Bologna Biocomputing Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 No. Only Web Service

:: MORE INFORMATION

Citation

BMC Bioinformatics. 2007 Mar 8;8 Suppl 1:S3.
A computational approach for detecting peptidases and their specific inhibitors at the genome level.
Bartoli L, Calabrese R, Fariselli P, Mita DG, Casadio R.

GeneStudio™ Pro 2.2.0.0 – Sequence Format Conversion Engine and More

GeneStudio Pro 2.2.0.0

:: DESCRIPTION

GeneStudio™ Pro is a modern suite of molecular biology applications for the Windows platform built on sequence format conversion engine, SeqVerter?.  All manipulations with sequences of different formats are thus seamless and transparent for the user.  In addition, GeneStudio™ Pro is very well integrated with the information available for molecular biologists on the Internet

::DEVELOPER

GeneStudio, Inc.

:: SCREENSHOTS

:: REQUIREMENTS

  • Windows

:: DOWNLOAD

GeneStudio™ Pro

:: MORE INFORMATION