Search Results for "sql command line" - Page 34
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Showing 2376 open source projects for "sql command line"
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SFrame is a C++ framework built around the ROOT libraries for analysing particle physics data. It gives a very high performance for processing data, by allowing the user to run his/her code on a distributed farm of machines.
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trafalgar.map
Open Street Map (OSM) tools, OSM/XML parser, tag extractor
This is going to be a set of tools which is intended to be used with huge OSM files like the planet files in XML format. The parser reads directly from packed *.gz files and it is not needed to unpack the OSM/XML data files to the local disk. Now in 0.3.0: osm_tags: tag analyzer (like tag watch) osm_split: split osm file in single files for nodes, ways and relations and collect some meta information (will be used as input for other tools). osm_cut: create rectangular... -
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DRAMMS
A Deformable Medical Image Registration Toolbox
...Some typical applications of DRAMMS include, -- Cross-subject registration of the same organ (can be brain, breast, cardiac, etc); -- Mono- and Multi-modality registration (MRI, CT, histology); -- Longitudinal registration (pediatric brain growth, cancer development, mouse brain development, etc); -- Registration under missing correspondences (e.g., vascular lesions, tumors, histological cuts). DRAMMS runs in command line in UNIX/Mac OS, It accepts Nifti/ANALYZE/MetaImage image formats. It is fully-automatic --- takes two input images, and generates a registered image and (optionally) the deformation field. More information (installation, tutorial, manual, demonstration, FAQ, etc) can be found at http://www.rad.upenn.edu/sbia/software/dramms/ . -
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CUSHAW2: Parallel Gapped Read Alignment
One of the leading short-/long-read aligner to large genomes
CUSHAW2 is a fast and parallel gapped read alignment to large genomes, such as the human genome. The performance evaluation, by aligning simulated and real datasets to the human genome, shows that CUSHAW2 is consistently among the highest-ranked aligners in terms of alignment quality for both single-end and paired-end alignment, while demonstrating highly competitive speed. Furthermore, our aligner shows good parallel scalability with respect to the number of CPU threads. -
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nail_systems_biology
NAIL is a toolset for network analysis in the life sciences
...NAIL includes methods for creating networks, analysing and comparing networks, and for visualising or presenting the results. These methods are designed as self-contained platform-independent components which can be called either from another program, or from a command line. Modelling biological systems as networks (graphs) is becoming a common approach in the life sciences. However, different algorithms typically use different input and output data types, are implemented using different technologies, and are demonstrated by application to different biological problems. Because of this, the primary goal of the NAIL project is to provide a straightforward way to use network approaches in the life sciences, and to apply a variety of techniques quickly and easily on the same data. -
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phpBathymetry
Using PHP-CLI to parse NMEA data to generate depth maps with GD
Using PHP-CLI to parse NMEA data to generate depth maps with GD. As fishing is a passion of mine,and it got me to consider using the NMEA formatted data output from my Lowrance 5-DSI Elite to generate a bathymetric map of the lake at my cottage. It is currently very crude, just a bunch of CLI scripts that record NMEA data, and the other parses the stored data and builds a depth, water temperature and sample frequency map. -
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FLASH
Merge mates from fragments that are shorter than twice the read length
FLASH, Fast Length Adjustment of SHort reads, is a very accurate fast tool to merge paired-end reads from fragments that are shorter than twice the length of reads. The extended length of reads has a significant positive impact on improvement of genome assemblies. -
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Open Source Implementations for 3D-Surface Characterisation Algorithms according to ISO 25178 (Geometric Product Specification) in verifiable pseudocode (MATLAB). Implementation of an XML-based file exchange format according to upcoming ISO 25178-72.
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slycat
Web-based data science analysis and visualization platform.
This is Slycat - a web-based data science analysis and visualization platform, created at Sandia National Laboratories. The goal of the Slycat project is to develop processes, tools and techniques to support data science, particularly analysis of large, high-dimensional data. -
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JUnit Execution & Report Generation Tool
Runs JUnit Test cases and generate HTML report, keeps past run history
This tool pulls all JUnit testcases from the class path and run them all. After completion of test case execution it populates the result in database tables. A report tool fetch the result data from database and produce an HTML report. Highlights of this tool - No coding effort is required from developer to integrate existing JUnit test cases. They just need to put their test case folder to the class path - Since it keep the test result data in a database, it can keep history of... -
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vipR is a program to screen for sequence variants (SNPs, deletions) in sequence data generated by high-throughput-sequencing platforms. Information on this and other projects can be found on: http://www.altmann.eu
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Serapis
System for the evacuation and relocation of affected pop. in shelters
Serapis can be used to simulate the mass evacuation of a population from a city with constraints on transport network. Contrary to other similar software, Serapis does not simulate the full transport but focus only on throughput of congestion points. It allows to differentiate between the behaviours and possibilities of different categories of population (children, elderly people, disabled...). -
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PhaseTank
genome-wide computational identification of phasiRNAs
Phase siRNAs (phasiRNAs) are a class of small RNAs, which triggered by miRNA-targeted cleavage and followed by DCL4-mediated production of small RNAs phased in 21-nt increments. Here, we introduce PhaseTank to systematically characterize 'miRNA → mRNA → tasiRNA → target genes' regulatory casacades in plants. With one command analysis, PhaseTank is an easy-to-use software for users. -
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The Khepera III Toolbox is a collection of scripts, programs and code modules for the Khepera III robot. It allows for easy access to all sensors and actuators of the robot and provides a lot of standard programs.
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modDFS
Find whether a KEGG module is complete in a proteome
Given module definitions and reaction information based on a KEGG database, modDFS does a depth first search to find whether a set of KOs are sufficient for completion of a module. For cases where only 1 absent KO would've been enough for module completion, that module is reported to be complete(only lenient). For cyclic modules, completion is defined as having all the module reaction steps present. Again, lenient completion cases are reported. Also, all absent reactions are reported so that... -
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A programmable signal generator and RF synthesizer for scientific experiments, especially quantum computing and quantum information processing. It includes hardware, firmware, software, and documentation, all under an open source license.
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That project aims at studying and comparing typical airline IT methods, for instance RM-related algorithms. It works from a Unix/Linux/Mac command-line, and exposes basic APIs. It is being developed in C++, with Python wrappers for some components.
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SWP Project
SWP is for Weighted Points
SWP is a script language to manipulate sets of isolated weighted point, mainly analysis of fractal and other statistical properties of such sets. Originally started as a tool to explore fractal properties of cosmic fractal like large-scale distribution of galaxies. Could be used for any similar sets either. -
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IQuant
A pipeline for quantitative proteomics based upon isobaric tags
...It integrates post-processing tool of protein identification and advanced statistical algorithms to process the MS/MS signals generated from the peptides labeled by isobaric tags for quantification. IQuant can run from a graphical user interface (GUI) as well as a command-line interface and work with both Windows and Linux system. This website contains the IQuant software, an example data labeled by iTRAQ-8plex for testing and a user's manual. If you have any question about IQuant, please contact me: wenbo@genomics.cn. The source code of IQuant can be found here "https://sourceforge.net/p/iquant/code/". -
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The MaxParser is written in c++ and can parse with first, second, third and fourth order projective Graph-based Dependency parsing algorithm. The project is the new version of the project "Max-MSTParser". If you want to use this software for research, please reference this web address in your papers
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A Scalable Multicore Code for RNA Secondary Structure Prediction
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manticora
ternary logic calculator
Some scripts for boolean calculation, including a parser. Ternary logic support. Everything is written in Posix Sh. -
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Athus
Manage, merge, filter and convert population genetics data
This project assists you in performing population genetic analyses by taking over the ugly, boring and error-prone data manipulation steps. 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,... -
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deFuse is a software package for gene fusion discovery using RNA-Seq data. deFuse .tar.gz bundles will be released periodically on the sourceforge site, see Files. Questions can be posted to the sourceforge discussion forum. The sourceforge wiki is depracated in favour of documentation included with the package. Development of deFuse is on the bitbucket site, linked below.
