Search Results for "variation"
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Showing 62 open source projects for "variation"
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Software developed for the analysis of Neutron Reflectivity data.
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jif3d
3D Joint Inversion Framework
...It currently comprises forward solvers for first arrival traveltimes, scalar and tensor gravity data, magnetics, magnetotellurics, electrical resistivity tomography and surface waves.The framework is flexible in terms of the coupling approach between the different datasets. At the moment cross-gradient coupling, variation of information and deterministic parameter relationships are implemented. Other coupling approaches can be added relatively easily. -
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ExCon Imager
Gigapixel GPU accelerated radio interferometric imager
...It implements novel gridding and image weighting algorithms. It is well suited to make ultra deep radio interferometric images, minimizing aliasing artefacts and PSF variation. NVIDIA GPU acceleration is available. JAVA/SCALA support available. -
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DNP3 Client Master Simulator download
Simulate DNP3 Client / Master using serial, TCP communication
...support CROB, analog output command with "select-before-operate" or "direct-execute" command execution modes Industry proven, tested with all leading test tools User manual : http://www.freyrscada.com/docs/FreyrSCADA-DNP-Client-Simulator-User-Manual.pdf Interoperability : http://www.freyrscada.com/docs/FreyrSCADA-DNP-Driver-Object-Variation-Support.pdf Get a free DNP3 Development Bundle In the Development Bundle, We included DNP3 Outstation & Client Simulator, Windows & Linux SDK. http://www.freyrscada.com/dnp3-ieee-1815.php Video Tutorial https://www.youtube.com/playlist?list=PL4tVfIsUhy1abOTxSed3l56FQux5Bn_gj -
Enterprise-grade ITSM, for every businessFreshservice is an intuitive, AI-powered platform that helps IT, operations, and business teams deliver exceptional service without the usual complexity. Automate repetitive tasks, resolve issues faster, and provide seamless support across the organization. From managing incidents and assets to driving smarter decisions, Freshservice makes it easy to stay efficient and scale with confidence.
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NGSEP
NGSEP (Next Generation Sequencing Experience Platform)
...The current version provides functionalities for both de-novo and reference guided analysis of sequencing data, including genome assembly, read mapping, variants detection and genotyping and de-novo analysis of data generated from reduced representation protocols. NGSEP also provides modules for analysis of genomic variation databases (VCF files), including functional annotation, filtering, format conversion, comparison, clustering, imputation, introgression analysis and different kinds of statistics. Since version 4, we provide functionalities for management of genomes and transcriptomes, including genome alignment and annotation of transposable elements. ... -
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DNP3 protocol Server Simulator download
Simulate DNP3 Outstation server using serial, tcp, udp communication
...support CROB, analog output command with "select-before-operate" or "direct-execute" command execution modes Industry proven, tested with all leading test tools Interoperability : http://freyrscada.com/docs/FreyrSCADA-DNP-Driver-Object-Variation-Support.pdf Get a free DNP3 (IEEE 1815) Development Bundle In the Development Bundle, We included DNP3 Server & Client Simulator, Windows & Linux SDK. http://www.freyrscada.com/dnp3-ieee-1815.php Video Tutorial https://www.youtube.com/playlist?list=PL4tVfIsUhy1abOTxSed3l56FQux5Bn_gj -
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DNP3 Protocol Code Win Linux download
DNP3 Protocol Source code Library Outstation and client Win Linux
...http://www.freyrscada.com/dnp3-ieee-1815.php Video Tutorial https://www.youtube.com/playlist?list=PL4tVfIsUhy1abOTxSed3l56FQux5Bn_gj Interoperability : http://www.freyrscada.com/docs/FreyrSCADA-DNP-Driver-Object-Variation-Support.pdf FreyrSCADA offering Static and Dynamic Libraries (DLL, LIB), DNP3 Source Code Library, Demo Kit (Raspberry Pi & BeagleBone Black) or Customer specific Hardware windows, Linux, QNX -
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DNP3 Protocol Linux Arm POSIX code
DNP3 Protocol Source code Library for Linux x86 x64 ARM PowerPC
...Get a free DNP3 Development Bundle http://www.freyrscada.com/dnp3-ieee-1815.php Interoperability : http://www.freyrscada.com/docs/FreyrSCADA-DNP-Driver-Object-Variation-Support.pdf Video Tutorial: https://www.youtube.com/playlist?list=PL4tVfIsUhy1abOTxSed3l56FQux5Bn_gj -
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DNP3 Windows c c++ c# .net
DNP3 Source code Library for Windows and simulator
...http://www.freyrscada.com/DNP3(IEEE-1815)-Windows-Software-Development-Kit(SDK).php Interoperability : http://www.freyrscada.com/docs/FreyrSCADA-DNP-Driver-Object-Variation-Support.pdf Video Tutorial: https://www.youtube.com/playlist?list=PL4tVfIsUhy1abOTxSed3l56FQux5Bn_gj DNP3 Windows SDK contains Win DLL library, Static link lib, Demo Server & Client programs, Visual Studio Demo console project files, Doxygen -
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DNP3 Protocol Win Linux test tool code
DNP3 Outstation and client simulator, Source code Library, win, Linux
DNP3 Protocol - v21.06.018 Complete implementation of DNP3 protocol standard including File transfer. Binary Input, Double-bit Binary Input, Binary Output, Counter Input, Analog Input, Analog output, Octect String, virtual terminal String. support CROB, analog output command with "select-before-operate" or "direct-execute" command execution modes Industry proven, tested with all leading test tools. DNP3 Protocol RTU Outstation Server Simulator, Client Master Simulator,... -
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NGSpop
NGSpop: identifying & visualizing sequence variation in deepvariant
*NOTICE* The official software(NGSpop) will be updated soon, so please visit us in 2/29. Thank you. -
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opencpnplugins
Plugins for OpenCPN
This project hosts various plugins for the OpenCPN chart plotter, which are not bundled with the core package. OpenCPN is a free software (GPLv2) project to create a concise chart plotter and navigation software, for use underway or as a planning tool. OpenCPN is developed by a team of active sailors using real world conditions for program testing and refinement. -
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YeastpRofileSpearman
Software to calculate profiles around TSS and TTS of yeast mRNAs
YeastpRofileSpearman is a portable Windows form application, written in C#, to compute the profile of a genomic variable around transcription start (TSS) and termination (TTS) sites of yeast mRNAs. It is variation of the software application YeastpRofile (https://sourceforge.net/projects/yeastprofile/) in which Spearman’s rank correlation coefficient (Rs) is computed in place of Pearson correlation coefficient. The profile is obtained by calculating the genome-wide Rs between the genomic variable values and the TSS (or TTS) counts at incremental shifting of transcribed strand. ... -
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TVscript
Exploration of the removal of count variable transcripts.
> See TVscript wiki: https://sourceforge.net/p/tvscript/wiki/Home/ Related Software: 1. CStone: https://sourceforge.net/projects/cstone/ 2. CSReadGen: https://sourceforge.net/projects/csreadgen/ 3. CView: https://sourceforge.net/projects/cview/ 4. ChimSim: https://sourceforge.net/projects/chimsim/ 5. TVScript: (See wiki) 6. SeQuester: https://sourceforge.net/projects/sequester/ 7. TreeScope: https://sourceforge.net/projects/treescope/ -
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Allelome.PRO
A pipeline to define allele-specific genomic features
...Allelome.PRO extends approaches used in previous studies that exclusively analysed imprinted expression to give a complete picture of the “allelome” by automatically categorising the allelic expression of all genes in a given cell type into imprinted, strain-biased biallelic or noninformative. Allelome.PRO offers increased sensitivity to analyse lowly expressed transcripts, together with a robust false discovery rate empirically calculated from variation in the sequencing data. -
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cocolib / light field suite
CUDA library for continuous optimization and light field analysis
Library for continuous convex optimization in image analysis, together with a command line tool and Matlab interface. Implements several recent algorithms for inverse problems and image segmentation with total variation regularizers and vectorial multilabel transition costs. Also included is a suite for variational light field analysis, which ties into the HCI light field benchmark set and givens reference implementations for a number of our recently published algorithms. *** NOTE: documentation on the SourceForge page is outdated and not updated anymore, please visit http://cocolib.net *** -
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variantkey
Binary files for variantkey
Binary files for the variantkey library: https://github.com/Genomicsplc/variantkey The binary files are generated using the script: https://github.com/Genomicsplc/variantkey/blob/master/resources/tools/vkhexbin.sh from the Human Variation Sets in VCF Format [National Library of Medicine (NLM)]: ftp://ftp.ncbi.nih.gov/snp/organisms/ -
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Meraculous-2D
Eukaryotic Genome Assembler
---------------------------------------- IMPORTANT: Meraculous-2D has been superseded by the HipMer assembler, available here: https://sourceforge.net/projects/hipmer/ ----------------------------------------- Meraculous-2D is a whole genome assembler for NGS reads (Illumina) that is capable of assembling large, diploid genomes with modest computational requirements. Features include: - Efficient k-mer counting and deBruijn graph traversal - Two modes of handling of diploid allelic variation - Improved scaffolding that produces more complete assemblies without compromising scaffolding accuracy. The assembly is driven by a perl pipeline which performs data fragmentation and load balancing, as well as submission and monitoring of multiple task arrays on a GE/SLURM-type cluster or a standalone multi-core server. ... -
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NOTE: For latest version, please visit https://github.com/ispasic/FlexiTerm. FlexiTerm is an open-source software tool for automatic term recognition. FlexiTerm uses a range of methods to neutralise the main sources of term variation. FlexiTerm is robust enough for less formally structured texts, such as those found in patient blogs or medical notes.
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REHUNT
REHUNT (Restriction Enzymes HUNTing)
REHUNT (Restriction Enzymes HUNTing) is a free and open source package implemented in JAVA for providing many useful methods for biological sequence analysis (especially in SNP genotyping) around restriction enzymes. All academic researchers are encouraged to use REHUNT in their studies or to integrate it into their systems and applications. Non-academic users or commercial needs are also welcome to use it. For further information or additional applications, please contact the author... -
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...We present RUbioSeq+, a stand-alone and multiplatform application for the integrated analysis of NGS data. More specifically, our software implements pipelines for the analysis of single nucleotide and copy-number variation, bisulfite-seq and ChIP-seq experiments using well-established tools to perform these common tasks. RUbioSeq+ is free and includes all the core functionalities implemented in the original release of RUbioSeq (v3.2.1) but, also, outperforms and expands RUbioSeq capabilities supporting the parallelized analysis of full genomes in computing farms. ...
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PBSuite
Software for Long-Read Sequencing Data from PacBio
This currently hosts two projects created and maintained by Adam English. PBJelly - the genome upgrading tool. PBHoney - the structural variation discovery tool Both are contained within the PBSuite code found in downloads. ----- PBJelly ----- Read The Paper http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0047768 PBJelly is a highly automated pipeline that aligns long sequencing reads (such as PacBio RS reads or long 454 reads in fasta format) to high-confidence draft assembles. ... -
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stellarics
Inverse Compton emission from heliospheres of sun and stars
Cosmic ray electrons scatter on the photon fields around stars, including the sun, to create gamma rays by the inverse Compton effect. This program computes the spectrum and angular distribution of this emission. The software also includes general-purpose routines for inverse Compton scattering on a given electron spectrum, for example for interstellar or astrophysical source modelling. For further information see these publications: http://arxiv.org/abs/astro-ph/0607563,... -
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BayesRate
Bayesian estimation of diversification rates
BayesRate is a program to estimate speciation and extinction rates from dated phylogenies in a Bayesian framework. The methods are described in: Silvestro, D., Schnitzler, J. and Zizka, G. (2011) A Bayesian framework to estimate diversification rates and their variation through time and space. BMC Evolutionary Biology, 11, 311 Silvestro D., Zizka G. & Schulte K. (2014) Disentangling the effects of key innovations on the diversification of Bromelioideae (Bromeliaceae). Evolution, 68, 163-175. -
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RGAAT
Reference based genome assembly and annotation for new genome
This program can assemble and/or annotate genome for new genome and known genome upgrade using sequence alignment file (SAM or BAM format), sequence variant file (VCF format or five coloum table (tab-delimited, including chromosome, position, id, reference allele and alternative allele)) or new genome sequence file (FASTA format) based on reference genome sequence file (FASTA format) and annotation file (TBL, GTF, GFF, GFF3 or BED format).
