This is the Linux app named IPGWAS whose latest release can be downloaded as ipgwas3.0.5.tar.gz. It can be run online in the free hosting provider OnWorks for workstations.
Download and run online this app named IPGWAS with OnWorks for free.
Follow these instructions in order to run this app:
- 1. Downloaded this application in your PC.
- 2. Enter in our file manager https://www.onworks.net/myfiles.php?username=XXXXX with the username that you want.
- 3. Upload this application in such filemanager.
- 4. Start the OnWorks Linux online or Windows online emulator or MACOS online emulator from this website.
- 5. From the OnWorks Linux OS you have just started, goto our file manager https://www.onworks.net/myfiles.php?username=XXXXX with the username that you want.
- 6. Download the application, install it and run it.
SCREENSHOTS
Ad
IPGWAS
DESCRIPTION
Integrated Pipeline for Genome-Wide Association StudiesFeatures
- genome-wide association study (GWAS)
- quality control (qc)
- Manhattan plot and QQ plot
- Cochran-Armitage trend test, Association test
- combine GWAS dataset, Split GWAS Data by Chromosome
- Convert EIGENSTRAT output chi-square to p value
- Convert MACH imputation output to PED/MAP format and SNPTEST format
- Convert PED/MAP files to the default input format of PHASE and BEAGLE
- Convert PLINK and SNPTEST files to GWAMA format
- P-Value Calculator (Chi-square test, Cochran-Armitage trend test, and Fisher's exact test)
- Change affection status of GWAS data
- filt Subjects of GWAS data by affection status (case/control) and/or gender (male/female)
- GUI for PLINK, SNP ratio Test
- filter singleton significant SNPs
- eigPlot (plot the eigenstrat result)
- Convert PED/MAP files to the default input format of MACH and IMPUTE2
- Convert IMPUTE2 imputation output to TPED/TFAM (PLINK) format
This is an application that can also be fetched from https://sourceforge.net/projects/ipgwas/. It has been hosted in OnWorks in order to be run online in an easiest way from one of our free Operative Systems.
