Search Results for "icon of program: command"
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Showing 87 open source projects for "icon of program: command"
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Subread
High-performance read alignment, quantification and mutation discovery
The Subread software package is a tool kit for processing next-gen sequencing data. It includes Subread aligner, Subjunc exon-exon junction detector and featureCounts read summarization program. Subread aligner can be used to align both gDNA-seq and RNA-seq reads. Subjunc aligner was specified designed for the detection of exon-exon junction. For the mapping of RNA-seq reads, Subread performs local alignments and Subjunc performs global alignments. Subread and Subjunc were published in... -
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Disposition
Program to generate permutations and combinations
C Library designed to generate in sequence permutations or combinations (possible orderings or subsets) of objects, with or without repetition. To demonstrate the use of the library, a command-line program (disp) and a GTK graphical version (GDisp) are provided too, useful to teach combinatorics. -
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schur
Interactive Program For Calculating Properties Of Symmetric Functions
Schur is a standalone program for interactively calculating properties of Lie groups and symmetric functions. Schur has been designed to answer questions of relevance to a wide range of problems of interest to chemists, mathematicians, computer scientists,... -
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UniversalMer
A CLI k-mer counting tool for multiple sizes of k at once.
UniversalMer is a k-mer counting tool for multiple size of k at once. It is available for DNA, RNA, and protein sequences. The program counts and summarizes the exact frequency of all k-mers from 1-mer to a user-defined maximum length (kmax). Analyzing the k-mer spectrum across multiple values of k can be done in seconds. This program is designed for bioinformatics researchers and scientists. -
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IDCS-unisim
Emulates a set of UniDrive motor controllers for IDCP
unisim emulates a set of UniDrive motor control devices for the Insertion Device control program IDCP. With unisim you can run and test the Insertion Device Control System on your Linux PC. -
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Charmol
Program for molecular graphics
Charmol is a cross-platform GUI/command-line based program for making high-quality pictures of molecular structures, nowadays working on Linux, MacOS and Windows. As output, it produces POV-Ray rendered images or files in VRML format. Charmol is capable of making pictures containing: - from small- to large-size molecules - more molecules together (different settings possible) - orbitals using molden and fchk files (GTO functions up to 'h' angular momentum supported) - surfaces using gaussian cube files (also color-mapped surfaces according to potential) - schematic representation of vibrations using arrows - user-defined arrows representing vectorial properties - measuring gauges - combinations of these features (more orbitals together, orbitals and arrows together etc.) ... -
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Tiny Multi Bootloader+
Serial Bootloader for Microchip, Atmel, NXP, TI, 8051 microcontrolers
...This Bootloader consists of: - firmwares for many devices (this firmware need to be send to the device's flash memory with a programmer, only once) - a PC software which communicates with the bootloader firmware in the device and send the user's program in its memory Where does it come from? This Bootloader is based on "Tiny PIC Bootloader" made by Claudiu Chiculita. A special THANK to him!!! What can it do? It can program: - Microchip PIC10/12/16/18/24/32/dsPIC30/33 - Atmel ATtiny, ATmega - TI MPS430 - NXP ARM Cortex-M0+ - Silicon Labs C8051 And this: - with light modifications to the Bootloader firmware for new devices - without modifying your source code or using a special linker script - via GUI or command line prog - with automatic Reset -
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ESTScan is a program that can detect coding regions in DNA/RNA sequences, even if they are of low quality (e.g. EST sequences). ESTScan will also detect and correct sequencing errors that lead to frameshifts.
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Frame3DD
Static and Dynamic Structural Analysis of 2D and 3D frames.
FRAME3DD is a program for the static and dynamic structural analysis of two- and three-dimensional frames and trusses with elastic and geometric stiffness. -
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igspread
converts between IGES file and text file
Command-line interface program that converts between IGES file and text file. IGES files are compatible with most of CAD systems. This program permits you to convert curves and points created in CAD program into coordinates in text file or you can do the opposite - convert text files into curves. It is especially suitable for curves described by hundreds of coordinates, e.g. airfoil contours of aircraft wings. -
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XMD is a program for performing molecular dynamic simulations on metals and some ceramics materials at the atomic scale. It models atomic energies and dynamics using user defined pair potentialsl, EAM potentials and some hard coded potentials.
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bruread is a program to read and display NMR data in the Bruker XWIN-NMR format. The program has a command-line interface and a graphic display based on gnuplot. - Note that this is only an NMR spectrum *viewer*, not a full-fledged data evaluation suite
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The libbuspirate is a C library to talk with the bus pirate hardware (http://dangerousprototypes.com/docs/Bus_Pirate) in raw, binary scripting mode. The libbuspirate allows to quickly write a short C program to test interfacing with your favorite hardware. The library has mainly be used to interface through SPI with RF transceivers such as CC2500, MRF24J40, Ethernet controller such as ENC28J60, EEPROMs such as 24C02, 24FC1025, LCD display (PCD8544 / Nokia5110), LED display (HT1632), ......
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ccplot
CloudSat and CALIPSO plotting tool
ccplot is an open source command-line program for plotting profile, layer and earth view data sets from CloudSat, CALIPSO and Aqua MODIS products. -
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Jojos Binary Diff
Binary Diff and Undiff Utility
JDIFF is a program that outputs the differences between two binary files, either in binary format or in human readable format (detailed or summarized) and then allows to reconstruct the second file from the first one and the diff-file. -
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CUDALucas
A program that uses CUDA to accelerate the Lucas Lehmer test.
CUDALucas is a program implementing the Lucas-Lehmer primality test for Mersenne numbers using the Fast Fourier Transform implemented by nVidia's cuFFT library. You need a CUDA-capable nVidia card with compute compatibility >= 1.3 up to CUDA 6.5, 2.x up to 7.0 and 3.x for >=CUDA 8.0 . The program is run from the command line, however it can be configured without using a terminal. -
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A program that generates PLD (Programmable Logic Device) programming tables & LFSR/BIBLO (Linear Feedback Shift Register/Built In Logic Block Observer) signature for a function given by the user.
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SIBsim4: an extensive rewrite of the sim4 program to improve execution speed and provide more informative output. Written in C, mainly targeted at Linux and Unix. Keywords: bioinformatics, genome, transcriptome, EST, splicing, exon, intron.
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MrBayes is a program for the Bayesian estimation of phylogeny. The project has been moved to GitHub: https://github.com/NBISweden/MrBayes
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GPU MrBayes implements MrBayes MC(3) on the GPU using CUDA. When using our program in your article, please cite our paper "Efficient Implementation of MrBayes on multi-GPU" (http://mbe.oxfordjournals.org/content/early/2013/03/14/molbev.mst043.abstract.html?papetoc).
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mdoptcli
Multidimensional Optimizer for Command Line
This program is a command-line interface to several multi-dimensional optimization algorithms coded in the *GNU Scientific Library -- GSL*. Namely the *Simplex* algorithm, which does not need a gradient, and from the gradient-based algorithms the *Conjugate Gradient -- CG* and the *Broyden-Fletcher-Goldfarb-Shanno -- BFGS* methods. The energy (and possibly energy gradient) is evaluated by a given command, which has to accept coordinates on standard input and returns the appropriate energy (or gradient) on standard output. -
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Chooch
Determine f'' and f' from X-ray fluorescence spectra
A program for deriving anomalous-scattering factors from X-ray fluorescence spectra. -
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SODE
Program to solve differential equations using long Taylor series
Program to generate a program to numerically solve either a single ordinary differential equation or a system of them.It is a Ruby program, now called omnisode, which generates either Ruby, C, C++, Maple or Maxima code. Code can be generated for all languages under Linux. Ruby can be generated under Windows. All can be generated under cygwin, but would need work on execution of Maple. Omnisode itself is Ruby, which is needed in all cases to generate the program. -
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BWA is a program for aligning sequencing reads against a large reference genome (e.g. human genome). It has two major components, one for read shorter than 150bp and the other for longer reads.
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rawi2ctool
RAW I2C command line tool for debug, test and more
This is a Linux command line tool to do raw I2C accesses to a bus, IF SUPPORTED BY THE ADAPTER, to probe the bus, read or write some data, detect glitches, do a bench, program an EEPROM with the required blocksize, test the I2C bus driver, ... Raw I2C mode enables data frames that are not supported by SMBus and related tools (such as i2cget, i2cset, i2cdump)
