Search Results for "linux command" - Page 51

Turn genes into rhythm. Feed the software with a nucleotide sequence as input, and it will translate it as MIDI messages, designed especially for the KORG ESX-1 but ready to be used with any MIDI-enabled device or software.

sloadhost: command line options driven utilities to target microcontroller serial boot load protocols. First supported target is the STM32 (Cortex M3 core) These run on Linux and Windows

A set of Unix command line tools for quick and convenient batch processing of tabular text files (a.k.a., tab-delimited, csv, or flat file format) with a header line. Provides delimiter and compression detection, column reference by name. * tblmap: per-line ("map") computation: derive columns through an expression, delete, reorder, filter rows. * tblred: compute ("reduce") aggregations (e.g., sum, average) over groups defined by key columns. * tbldesc: Summarize columns in file...

A gibbs energy calculator based on the CDK.

MSR Tools is a source code evolution analysis tool. It consists of a framework for mining software repositories and tools for metric calculation, visualization, defect prediction.

The RDXplorer is a computational tool for copy number variants (CNV) detection in whole human genome sequence data using read depth (RD) coverage. CNV detection is based on the Event-Wise Testing (EWT) algorithm recently published by our group.

The first goal of this project is to create a realistic environnment simulator including most of the last scientist discovery. The domain are astrophysics, geophysics, electromagnetics, ... The second goal of this project is the creation of an interface to use this environnment. In particular the fact that it is possible to connect/command/control some automatic tools (robot, sensor, ... ) note : les images utilisés proviennent de http://www.photo-libre.fr

AnnTools is an efficient, fast and robust bioinformatics tool annotating SNP and CNV calls generated from sequencing and microarray data.

Pink is an image processing library developed at ESIEE Engineering for research and teaching purposes. It contains implementations of over 200 algorithms for image segmentation and filtering.

MUMmer is a modular system for the rapid whole genome alignment of finished or draft sequence. This package provides an efficient suffix tree library, seed-and-extend alignment, SNP detection, repeat detection, and visualization tools.

guileplayer is a Scheme binding for libplayerc - the Player client library, part of Player/Stage project. It can be used with guile (GNU Scheme interpreter) version 1.6 or later.

A high-performance simulation package for sampling the chemical and reaction-diffusion master equations. Primarily intended for running stochastic simulations of microbial cells.

We here present a novel computer algorithm, called AutoClickChem, capable of performing many click-chemistry reactions in silico. In silico modeling of click-chemistry products may prove useful in rational drug design and drug optimization.

Simulator for transmission electron microscope images and tilt series of biological samples.

A robotic DIY styrofoam cutter consisting of one rotational and two translational axes. It cuts a variety of shapes out of styrofoam-like materials using a hot wire. This project documents the necessary hardware and software parts. Don't miss the follow-up project at http://raumschaum.org Its goal is to further develop hardware and software into an user friendly application.

xyz2eps.py is an command line utility written in Python programing language which prints the geometry from xyz-file directly to the eps-file format. Originally it was designed to study the problems related to grain boundaries in graphene.

Displays mummer/nucmer mappings and prints PNG to stdout via the "show-coords -lcdTH" output. The output file is <coords-output>.png. Command line options allow for different features when producing the image. Within the code there are comment blocks which give examples of how to further customize it i.e. grouping based on name similarity, color, etc. This program is aimed at providing full customization within the limits of the Bio-Graphics module. Current version supported is Bio-Graphics-2.25

Diva is a command-line tool for dispersal-vicariance analysis, a simple method for inferring the distributional history of organisms (Ronquist, F. 1997. Systematic Biology 46:193-201).

Ns is a discrete event simulator targeted at networking research. Ns provides substantial support for simulation of TCP, routing, and multicast protocols over wired and wireless (local and satellite) networks.

ZORRO is a probabilistic masking program that assigns confidence scores to each column in a multiple seqeunce alignment. These scores can then be used to account for alignment accuracy in phylogenetic inference pipelines.

Alignment of the assembled sequences to a reference genome is a common way to obtain a likely order for the contigs, though most of times the final decision is taken by the user. We present the jContigSort, a tool that sorts the genome contigs.

Software for parsimony-based tree fitting, which can be used for analysis of problems in historical biogeography, coevolution, and in species tree - gene tree fitting.

This project is based on a personal effort for researches on dynamics of coevovling networks. As a physicist, I am trying to build a framework for discrete-time dynamics of general networks, and its software libraries with APIs.

A fast efficient way of dealing with large amounts of Blast or Repeatmasker data.