Search Results for "plink"
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Showing 12 open source projects for "plink"
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Train ML Models With SQL You Already KnowBuild and deploy ML models using familiar SQL. Automate data prep with built-in Gemini. Query 1 TB and store 10 GB free monthly.
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Doffen SSH Tunnel
Manage hierarchy of ssh sessions and tunnels
Ssh terminal, file transfer and tunneling tool. The focus is on running tunnels inside tunnels. That one has to jump through several machines. Please see the wiki pages for documentation. https://sourceforge.net/p/doffensshtunnel/wiki/Home/ -
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A tool to estimate trends in recent effective population size trajectories using genome-wide SNP data.
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HTTP Proxy Injector
Custom HTTP Proxy Header Injection Application
HTTP Proxy Injector Custom HTTP Proxy Header Injection Application HTTP Proxy Injector is a simple but powerful tool to modify http proxy header requests and respons, to use with SSH or VPN on Windows OS. Access blocked websites behind firewall and many other functions. Free to use for everyone. Want to help HTTP Proxy Injector keep in existence and get better ? Please visit and share our Patreon, Google Sites or Facebook Page :) You can help HTTP Proxy Injector on or using... -
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fcGENE: Genotype format converter
Format converting tool for genotype Data (e.g.PLINK-MACH,MACH-PLINK)
Main application is twofold: first to convert genotype SNP data into formats of different imputation tools like PLINK MACH, IMPUTE, BEAGLE and BIMBBAM, second to transform imputed data into different file formats like PLINK, HAPLOVIEW, EIGENSOFT and SNPTEST. Readable file formats: plink-pedigree (ped and map), plink-raw, plink-dosage, mach , minimac, impute, snptest, beagle and bimbam. Similarly all kinds of imputation of outputs are also accepted. ... -
Your monitoring isn't a stack. It's a pile. Fix that.Replace Datadog, New Relic, and Sentry without adding three more dashboards.
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ingap-sf
a genome scaffolder
inGAP-sf is an effective scaffolder to generate high-quality and continuous scaffolds. inGAP-sf achieves this by using a new strategy based on the combination of Dlink and Plink graphs, in which Dlink is used to increase graph connectivity and to decrease graph complexity and Plink is employed to supervise the traversing process on the Dlink graph. Such advantage greatly facilitates the assembly of short-repeat enriched regions. Moreover, a new comprehensive decision model is developed to eliminate the noise routes accompanying with the introduced Dlink. ... -
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SPANDx
Comparative analysis of haploid next-generation genome sequence data
...A presence/absence matrix is also generated to allow you to identify the core/accessory genome content across all your genomes. The outputs generated by SPANDx can be imported into PLINK for microbial genome-wide association study (mGWAS) analyses. SPANDx can utilise PBS, SGE or SLURM for resource management. SPANDx can also run directly on the command line if no resource manager is available. For the most up-to-date version of SPANDx, check us out on GitHub: https://github.com/dsarov/SPANDx -
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Swandle
Swandle is a server handler. It can be used to connect & send commands
...To start, run swandle.bat You will have to download plnk and winscp and put them in script folder. This program is an open source program which uses third party products WinSCP and plink. This program also needs Visual C++ Redistributable. (Normally included in windows new versions.) You just need to put the command and press enter for it to work. -
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Athus
Manage, merge, filter and convert population genetics data
...Starting from well specified input formats VCF, BED and FASTA and a unique configuration file describing data (f.e. from SNP-arrays or sequencing) as well as filtering one can create standard POPGEN formats like Eigenstrat, PEDMAP (PLINK), Treemix ... In addition there are several utilities for * generating VCF from SNPArray data (NCBI - GEO, Illumina call files) * work with genetic maps ... -
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Custom VMs From 1 to 96 vCPUs With 99.95% UptimeLive migration and automatic failover keep workloads online through maintenance. One free e2-micro VM every month.
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mendelFix
Correction of SNP Mendelian errors in trio data
mendelFix is a Perl script for checking Mendelian errors in genome-wide SNP data of trio designs. The program takes 12-recoded PLINK PED and MAP files as input, and calculates a series of summary statistics for Mendelian errors, sets as missing offspring genotypes that present Mendelian inconsistencies, and implements a simplistic procedure to infer missing genotypes using parent information. The program can be easily incorporated in any pipeline for family-based SNP data analysis, and is distributed as free software under the GNU General Public License. ... -
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ForEachBox is a scripting and automation tool for various Cisco devices. It supports the command line interface of the Cisco Nexus, IOS and ASA series. It is implemented as a Java GUI and requires the Plink tool that is included in PuTTY.
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Windows SSH
SSH for Windows, Based upon Plink
Windows Users, it's time to shut down your VirtualBox's. After trying so many different SSH emulators (Putty/Cygwin etc), I'm releasing a package based upon Simon Tatham's plink. All you need to do is download the package, run install.bat and open a command prompt. Then type in your SSH connection statement as standard.
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