P2S 20150226 – Converting files from Plink to Sumstat format

P2S 20150226

:: DESCRIPTION

P2S is a small utility program to convert formats from plink to sumstat and vice versa.The plink program uses the LINKAGE input format, which is a widely used format in genetic linkage and association analysis. The sumstat suite of programs has been developed using a different input format. Specifically, it lists each SNP on a separate input line (row) rather than an input column.

::DEVELOPER

Jurg Ott, Ph.D.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows

:: DOWNLOAD

 P2S

:: MORE INFORMATION

Prob2plinkbig – Convert MACH probability files to PLINK dosage files

Prob2plinkbig

:: DESCRIPTION

Use Prob2plinkbig to convert large MACH probability files to PLINK dosage files.

::DEVELOPER

CTG (Complex Traits Genetics) Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Windows / Linux / MacOSX
  • Perl

:: DOWNLOAD

 Prob2plinkbig

:: MORE INFORMATION

PLINK 1.90 b – Whole Genome Association Analysis Toolset

PLINK 1.90 b

:: DESCRIPTION

PLINK is a comprehensive toolset for statistical analysis in whole-genome association studies, designed to perform a range of basic, large-scale analyses in a computationally efficient manner.

::DEVELOPER

Purcell Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Mac OsX / Windows

:: DOWNLOAD

PLINK

:: MORE INFORMATION

Citation

Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR, Bender D, Maller J, Sklar P, de Bakker PIW, Daly MJ & Sham PC (2007)
PLINK: a toolset for whole-genome association and population-based linkage analysis.
American Journal of Human Genetics, 81.

PLink2Affy 20130313 – PLink Pedigree and Map File Conversion

PLink2Affy 20130313

:: DESCRIPTION

PLink2Affy converts PLink pedigree (*.ped) and map (*.map) files, into an Affymetrix-style files.

::DEVELOPER

Leeds Institute of Molecular Medicine

:: SCREENSHOTS

PLink2Affy

:: REQUIREMENTS

  • Windows
  • Microsoft .NET framework version 2.0

:: DOWNLOAD

 PLink2Affy

:: MORE INFORMATION

variants2plink – var File SNPs to PLINK converter

variants2plink

:: DESCRIPTION

variants2plink is a script will extract all single-base, diploid SNPs and convert them into a PLINK TPED (transposed PED) file.

::DEVELOPER

Complete Genomics, Inc.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/ MacOsX
  • Perl

:: DOWNLOAD

 variants2plink

:: MORE INFORMATION

PEDconvert – Convert PLINK PED files into Multiple Genes File Format

PEDconvert

:: DESCRIPTION

 PEDconvert tool converts PLINK PED files into Multiple Genes File Format.

::DEVELOPER

 Jae Hoon Sul

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 PEDconvert

:: MORE INFORMATION

prob2plink 0.01 – Converts MaCH prob+info output to PLINK dosage file

prob2plink 0.01

:: DESCRIPTION

the prob2plink program converts MaCH output (prob+info) into plink dosage file.

::DEVELOPER

Yun Li

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux /  Windows / MacOsX
  • Perl
:: DOWNLOAD

  prob2plink

:: MORE INFORMATION

gPLINK 2.050 – Graphical Interface for PLINK

gPLINK 2.050

:: DESCRIPTION

gPLINK is a Java program that provides a simple form interface to the more commonly-used PLINK commands (i.e. instead of using the command line options). gPLINK provides menus and dialogs to create valid PLINK commands, executes them, keeps a record of all commands run in a project, keeps track of input and output files, allows annotation of result files and facilitates integration with Haploview.

::DEVELOPER

Purcell Lab

:: SCREENSHOTS

:: REQUIREMENTS

:: DOWNLOAD

 gPLINK

:: MORE INFORMATION

Citation

Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR, Bender D, Maller J, Sklar P, de Bakker PIW, Daly MJ & Sham PC (2007)
PLINK: a toolset for whole-genome association and population-based linkage analysis. 
American Journal of Human Genetics, 81.