ccPDB 2.0 – Compilation and Creation of datasets from PDB

ccPDB 2.0

:: DESCRIPTION

ccPDB is designed to provide service to scientific community working in the field of function or structure annoation of proteins. This database of datasets is based on Protein Data Bank (PDB), where all datasets were derived from PDB. ccPDB have four modules; i) compilation of datasets, ii) creation of datasets, iii) web services and iv) Important links.

::DEVELOPER

ccPDB team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

  NO

:: MORE INFORMATION

Citation

ccPDB 2.0: an updated version of datasets created and compiled from Protein Data Bank.
Agrawal P, Patiyal S, Kumar R, Kumar V, Singh H, Raghav PK, Raghava GPS.
Database (Oxford). 2019 Jan 1;2019. doi: 10.1093/database/bay142.

ccPDB: compilation and creation of data sets from Protein Data Bank.
Singh H, Chauhan JS, Gromiha MM; Open Source Drug Discovery Consortium, Raghava GP.
Nucleic Acids Res. 2012 Jan;40(Database issue):D486-9. doi: 10.1093/nar/gkr1150.

GenomeVx 20130228 – Creation of editable Circular Chromosome Maps

GenomeVx 20130228

:: DESCRIPTION

GenomeVx is a web-based tool for making editable, publication-quality, maps of mitochondrial and chloroplast genomes and of large plasmids.

::DEVELOPER

the Wolfe Laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Bioinformatics. 2008 Mar 15;24(6):861-2. doi: 10.1093/bioinformatics/btm598. Epub 2008 Jan 28.
GenomeVx: simple web-based creation of editable circular chromosome maps.
Conant GC1, Wolfe KH.

XRNA 2.0b – Creation, Annotation & Display of RNA Secondary Structure Diagrams

XRNA 2.0b

:: DESCRIPTION

XRNA is a Java based suite of tools for the creation, annotation and display of RNA secondary structure diagrams.XRNA provides editing tools for easy modification of publication quality secondary diagrams that can be either drawn manually, or through automatic generation. Other features include grouping, numbering and structure annotation. XRNA secondary structures may be saved in a native format, or exported as postscript for printing and further manipulation in programs such as Adobe Illustrator.

::DEVELOPER

RNA Center, UCSC

:: SCREENSHOTS


:: REQUIREMENTS

  • Windows / MacOsX / Linux
  • Perl

:: DOWNLOAD

XRNA

:: MORE INFORMATION

CREATE 1.37 – Creation of new and Conversion of Existing data input files for 64 Genetic software

CREATE 1.37

:: DESCRIPTION

CREATE is software for the creation of new and conversion of existing data input files for 64 genetic data analysis software programs. Programs are grouped into areas of sibship reconstruction, parentage assignment, effective population size, quantitative genetics, general genetic data analysis, and specialized genetic applications.

::DEVELOPER

Jason Coombs ,jcoombs@cns.umass.edu ,Ben Letcher, and Keith Nislow

:: SCREENSHOTS

CREATE

:: REQUIREMENTS

  • Windows

:: DOWNLOAD

 CREATE

:: MORE INFORMATION

Citation

create: a software to create input files from diploid genotypic data for 52 genetic software programs.
Coombs JA, Letcher BH, Nislow KH.
Mol Ecol Resour. 2008 May;8(3):578-80. doi: 10.1111/j.1471-8286.2007.02036.x.

PedHunter 2.0 – Creation and Verification of Pedigrees within large Genealogies

PedHunter 2.0

:: DESCRIPTION

PedHunter is a software package that facilitates creation and verification of pedigrees within large genealogies.

::DEVELOPER

Richa Agarwala and Woei-jyh (Adam) Lee and Alejandro Schäffer.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux
  • C Compiler

:: DOWNLOAD

 PedHunter

:: MORE INFORMATION

Citation

Agarwala R, Biesecker LG, Hopkins KA, Francomano CA, Schäffer AA
Software for constructing and verifying pedigrees within large Genealogies and an application to the Old Order Amish of Lancaster County.
Genome Research 8:211-221, 1998.