Search Results for "python script" - Page 2
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Showing 73 open source projects for "python script"
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CONTIGuator is a Python script for Linux environments whose purpose is to speed-up the bacterial genome assembly process and to obtain a first insight of the genome structure using the well-known artemis comparison tool (ACT).
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UniPyRange
Tool to fetch protein/DNA truncation constructs from Uniprot DB
Very simple python script which saves you the pains of counting the amino acids/DNA bases in fasta files from the Uniprot and NCBI RefSeq Database (1, 2). Lets say you want the amino acid sequence of range 128-387 from a 1000 amino acid protein - this script will help you to avoid counting mistakes by just showing you the specified sequence in amino acids and coding DNA base pairs (ideal for amplification primer design) of a specified Uniprot ID. - Requires BioPython (3) and Bioservices... -
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This script can convert raw diffraction images to JPEG files. Support ADSC, MarCCD, Mar345, RAXIS and PILATUS, and can be run on Windows, Linux and Mac OS X.
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mitoMaker
mitoMaker - a mitochondria assembly and annotation script
mitoMaker is a pipeline script developed to simplify the assembly and automatic annotation of mitochondrial genomes, based on raw NGS reads and an optional target reference. mitoMaker calls well known assemblers and algorithms, such as SOAPdenovo, MIRA and blast+ and parses their results providing easily readable outputs, such as FASTA, GENBANK, SEQUIN, PNG and others. General pipeline: 1-iterative De Novo assembly, with different k-mer values, trying to assemble a build that matches... -
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Latest on Arxiv
Parse the latest Arxiv RSS stream and get your institute preprints
... this software as a demonstration on how we do it at the Kapteyn Astronomical Institute. The script is run daily as a cron command. Feel free to take and modify this code any way you want. But if you are using it, I'd love to at least here from you and know I didn't put this up for nothing. The program has no major prerequisites, except the Python package pyPdf. It is build for Python 2.6.x series, but will probably work on many others as well. -
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The BladeDesigner package is a CAD/CAE tool providing classes for turbomachine blade design. So far it is optimized to be useful in the aerodynamic design process. It comes with a GUI but is most powerful with user defined python scripts.
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Erda
Workflow automation of Thomas networks
This script is supplementary to the article "Time series dependent analysis of unparametrized Thomas networks" and performs the workflow steps described in section 7. -
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mitoMaker
mitoMaker - a mitochondria pipeline wrapper script
Mitomaker is a pipeline wrapper, result analyzer and automated annotator, written in Python v2.7, that, with the help of other programs, builds, analyzes, looks for the best build and annotates target genomes (such as mitochondria and cloroplast). It could be used with other targets, such as specific genes, or transcriptomes, even though that is not it's primary goal, nor thoroughly tested. After various attempts to build different mitochondrial genomes in the lab I studied, a general... -
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dl141th
Configure / read out the DL-141TH data logger
The DL-141TH temperature/humidity data logger comes with a proprietary software which has a quite large footprint and is only available for Windows, but not for Linux. This project provides - a description of the USB/serial protocol - a python script to configure / read out the DL-141TH data logger which can be used at least from Windows and Linux -
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portas
Pequeno script em Python para provar o problema de Monty Hall
O jogo consiste no seguinte: Monty Hall (o apresentador) apresentava 3 portas aos concorrentes, sabendo que atrás de uma delas está um carro (prémio bom) e que as outras têm prêmios de pouco valor. Na 1ª etapa o concorrente escolhe uma porta (que ainda não é aberta); De seguida Monty abre uma das outras duas portas que o concorrente não escolheu, sabendo à partida que o carro não se encontra aí; Agora com duas portas apenas para escolher — pois uma delas já se viu, na 2ª... -
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calc2booktab.latex
Script for OpenOffice/LibreOffice to convert tables to Latex-Code
UPDATE: The project was moved to github (https://github.com/schober-ch/calc2booktab). The soruceforge page won't get any bugfixes, please use the github repo if you want to try this macro. -------------------------------------------------------------------------- A Python extension for OpenOffice/LibreOffice to convert selected cells to LaTeX-Code. Its similar to Calc2Latex, but typographic formatting is more advanced (numeric columns, dcolumn-package, booktab-package) Script is tested... -
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PyRadMon
Automated reporting of Geiger Muller counter readings to RadMon.org
This project includes several Python and bash scripts designed to connect Geiger Muller counters to report their results to RadMon.org. Soon the script will also feature local logging, graphing and alerting. Just because the Cold War is "over" does not mean that there is no more threat of a radiological attack. In fact, the U.S. Homeland Security Council lists the "Detonation of a 10 Megaton Improvised Nuclear Device" as "Scenario #1" among the top 15 threats to American security... -
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Language Constructor
Complete tool for constructing/manipulating languages in digital form
With this tool you can easily design a new language, digitize an existing one or incrementally reconstruct an ancient language. It allows for free experimentation of all aspects of the language, so it does not have to be made consistent on paper first. You can edit script, syntax, grammar, morphology, lexicon and phonology, as well as write documents in the language, as it might be too complex to be handled by current font technology. The information is stored in xml format for easy integration... -
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GeekCode
Python script for GC
GeekCode Generator. Object - oriented python script, which allows You to generate GeekCode Block from natural english language symbols. All instructions are in program. Enjoy and please report bugs or anything else for improve this script. This is my first full object-oriented program. -
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Tag-find
a python script to recognize specific sequence of tags
Tag-find is a python script developed to clean up reads from a specific 12 nucleotides long tag sequence used during the cDNA library preparation for RNA-seq experiments. -
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openfablab
Open Source FabLab Project
Software script assembly to be executed on cnc machines and robots to build, maintain and replicate open source fablab. Here software meets hardware. -
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nwbas2ecce
nwbas2ecce converts nwchem basis set files to the ECCE format
The basis sets included with ECCE have -- as far as I can tell -- not been updated for many years. In addition, many of the newer basis sets that come with nwchem aren't included, such as the def2- series. nwbas2ecce is a python script that aims to automate as much as possible of the conversion process of a nwchem basis set file into the files necessary for ECCE to included it in the basis set tool. The process isn't completely automatic, but I also believe that it shouldn't be to avoid... -
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SDEdumper
Copy multiples feature classes in ArcSDE to a local file geodatabase
Why use it? You can create your own Python script using model builder, but you have to modify the script everytime you want to dump different tables. Using this script you only need to have a CSV with all the table names, that’s it. Purpose: It can be used as an archival and historical database It will make you ArcSDE database portable and shareable -
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RSAT
A script to perform SAT attacks on RSA
SAT solvers are being used more and more in partial key exposure attacks. The scope of this script is to show that SAT solvers can be used in partial key exposure attacks of RSA with very good results. -
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ReferenceFree
Scripts for reference free genomic analysis
These are Python scripts plus C/C++ programs for automating the reference free genomic analysis described in: Kua C-S, Ruan J, Harting J, Ye C-X, Helmus MR, et al. (2012) Reference-Free Comparative Genomics of 174 Chloroplasts. PLoS One 7(11). http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0048995 Analytical concept conceived by CHCannon and CSKua. Original script written in Mathematica by CHCannon. -
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A simple python script for aquarists that figures tank volume, salinity, converts temp & volume, and calculates substrates based on their specific gravity.
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WTMParse
Python script to parse Unix-like WTMP files
Python script that was originally intended for use in forensic examinations that parses WTMP files from Unix-like operating systems and generates a CSS-styled HTML report containing login terminal, username, log start date and login time/date in a table. Good for postmortem forensic examinations or as a way of getting "last" like information where you don't have the ability to boot the machine in question but can grab the wtmp. -
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convert2orcazmatrix
Python script that converts regular zmatrix to orca-zmatrix format.
Since I use GUI tools which only save the molecules to regular zmatrix format. I created a script that would convert the regular format to the special orca format. It is written in python and can be used like this. usage: convert2orcazmatrix.py [-h] -i INPUTFILE [-o OUTPUTFILE] -
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Gnuplot2TightPDF
Python script that produces a tight pdf from gnuplot with psfrag text.
Gnuplot is a widely known script based free plotting program. This script (gpt2pdf) makes it possible to generate pdf figures with 2D LaTeX maths on top of it by including psfrag replacements directly as comments in the gnuplot file. The resulting pdf file doesn't contain any extra white-spaces around it and as such can be comfortably included in any (pdf)LaTeX file. Requires: Python 2.4 - 2.7, LaTeX and the system commands ps2epsi and epstopdf which comes in with any ghostscript... -
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Redundancy due to cut-paste operations in text creates bias in machine learning for NLP. This module takes a directory and produces a subset of the files in that directory (in a list) with an upper bound on similarity between two files.
