Search Results for "pedigree"
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Showing 12 open source projects for "pedigree"
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See what everyone is allocated to. Projects, clients, meetings - all in one tool.Designed to replace clunky, old scheduling spreadsheets, Resource Guru helps managers get organized fast. The platform covers resource planning, resource scheduling, resource management, staff leave management, reporting, and more.
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Free Website Monitoring Service | UptimeRobotWith the Free Plan, you can monitor up to 50 URLs, check for a website's content (using the keyword monitor), ping your server or monitor your ports in 5-minute intervals. You can create a status page to showcase your uptime. SMS or Call alerts can be bought anytime.
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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. Formats which can be generated by fcGENE: plink-pedigree, plink-raw, plink-dosage, mach-inputs, minimac-inputs, impute-inputs, beagle-inputs and bimbam-inputs, HAPLOVIEW-inputs, EIGENSOFT-inputs. ... -
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denovo_hit
Outputs potential denovo variants from VCF given pedigree information.
.../denovo_hit <VCF file> <PED file> Output: ./potential_denovo.txt To compile: g++ -std=c++11 denovo_hit.cpp -o denovo_hit Please see files for example VCF file, and pedigree file. Format VCF file (tab delimited): CHROM, POS, ID, REF, ALT, QUAL, FILTER, INFO, FORMAT, SAMPLE_ID, ... Format pedigree file (tab delimited): SAMPLE_ID_CHILD, SAMPLE_ID_PARENT1, SAMPLE_ID_PARENT2 Output file format (tab delimited): CHROM, POS, ID, REF, ALT, QUAL, FILTER, INFO, PEDIGREE, CALL_STATS, COUNTS ... -
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Madeline 2.0 Pedigree Drawing Engine
Madeline 2.0 Pedigree Drawing Engine (PDE)
The Madeline 2.0 Pedigree Drawing Engine is a pedigree drawing program designed to handle large and complex pedigrees with an emphasis on readability and aesthetics. PLEASE NOTE THAT as of 2015.09.30, the most current Madeline source code tree is now maintained on GITHUB at https://github.com/piratical/Madeline_2.0_PDE . -
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PRIMUS
Pedigree Reconstruction and Identification of a Maximum Unrelated Set
NEW: Download new version with Pedigree Reconstruction at primus.gs.washington.edu This versions is outdated and incomplete. Please visit the new website for the complete version of PRIMUS. We present a method adapted from graph theory that always identifies the maximum set of unrelated individuals in any dataset, and allows weighting parameters to be utilized in unrelated sample selection. -
PeerGFS PEER Software - File Sharing and CollaborationPeerGFS is a software-only solution developed to solve file management/file replication challenges in multi-site, multi-platform, and hybrid multi-cloud environments.
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mapgraph
Massively Parallel Graph processing on GPUs -- now part of Blazegraph
Mapgraph is SYSTAP’s disruptive new technology to exploit the main memory bandwidth advantages of GPUs. The early work was co-developed with the University of Utah SCI Institute and has its pedigree in the UINTAH software running on over 750M cores on the TITAN Super Computer. Today, SYSTAP has commercialized this technology into it’s Blazegraph Accelerator and Blazegraph HPC products. Checkout our options for GPU acceleration of graphs or contact us to learn more: https://www.blazegraph.com/product/gpu-accelerated/. ... -
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FamSeq
Variant calling on the basis of pedigree information
It is still challenging to call rare variants. In family-based sequencing studies, information from all family members should be utilized to more accurately identify new germline mutations. FamSeq serves this purpose by providing the probability of an individual carrying a variant given his/her entire family’s raw measurements. FamSeq accommodates de novo mutations and can perform variant calling at chromosome X. To accommodate variations in data complexity, FamSeq consists of three... -
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r4st
A database rapid application development tool
The r4st ("Our Forest") project is a set of tools to assist with the rapid development of a database application. It uses shell scripts to drop/add Postgresql database tables/views with data loaded from sql and csv files. This process allows users to apply changes then re-build the system. It is essentially a customizable database regression system. The base schema and data module represent a plant database intended for educational and scientific usage. -
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PyPedal is a Python module that provides tools for the manipulation of pedigrees, simple visualization of pedigrees, and the calculation of measures of genetic diversity from pedigrees.
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CNViewer
CNViewer shows CNV and LOH data in affected and unaffected individuals
CNViewer is designed to allow the visual comparison of copy number (CN state) and loss of heterozygosity (LOH) data from Affymetrix SNP 6.0 microarrays between affected and unaffected members of a pedigree. The program aims to allow the identification of regions where the values of either the CN state or the LOH scores are the same in all the affected individuals, but none of the unaffected individuals have the same value. As well as visualising the CN state and LOH data, the program will also display Log(2) ratio, smooth signal and allele difference values that may also be obtained from the Affymetrix SNP 6.0 array (details on how to export the data are here). ... -
Secure your business by securing your people.Take the guesswork out of password management, shadow IT, infrastructure, and secret sharing so you can keep your people safe and your business moving.
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HaploPainter - a pedigree and haplotypes drawing tool written in Perl/Tk. The software processes pedigree information in standard linkage formats combining haplotype information outputs from Simwalk, Genehunter, Allegro and Merlin.
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Dairy Herder is a web application that allows dairies to track lineage and production records for their cows. A main goal is to have a pedigree generated for any given animal with the click of a button.
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