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Showing 17 open source projects for "select"
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OpenFermion
The electronic structure package for quantum computers
...However, for those who would like to use Windows, or for anyone having other difficulties with installing OpenFermion or its plugins, we have provided a Docker image and usage instructions in the docker folder. The Docker image provides a virtual environment with OpenFermion and select plugins pre-installed. The Docker installation should run on any operating system. -
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asammdf
Fast Python reader and editor for ASAM MDF / MF4 (Measurement Format)
*asammdf* is a fast Python parser and editor for ASAM (Associtation for Standardisation of Automation and Measuring Systems) MDF / MF4 (Measurement Data Format) files. It supports MDF versions 2 (.dat), 3 (.mdf) and 4 (.mf4). *asammdf* works on Python 2.7, and Python >= 3.4 -
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PySchool
Installable / Portable Python Distribution for Everyone.
PySchool is a free and open-source Python distribution intended primarily for students who learn Python and data analysis, but it can also used by scientists, engineering, and data scientists. It includes more than 150 Python packages (full edition) including numpy, pandas, scipy, sympy, keras, scikit-learn, matplotlib, seaborn, beautifulsoup4... -
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SimFPGA
VHDL Verification and Simulation Tool
SimFPGA is a graphical user interface (GUI) tool designed to facilitate the simulation of VHDL projects. It enables users to select VHDL source files and testbenches, configure library and standard settings, and run simulations using GHDL. Additionally, it allows visualization of waveforms through GTKWave. SimFPGA elaborates the project files using GHDL and builds the VHDL project before simulating it. This ensures code verification without the need for additional compilation tools. ... -
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HistogramsApp
Application that generates KDE-PDP plots from geochronological data
HistogramsApp is a Python 3.6 application that generates (KDE and PDP) from geochronological data .HistogramsApp allows to interactively setup plot parameters such as the bandwidth and the peak detection sensibility. To cite the application please refer to: 1) https://www.tandfonline.com/doi/abs/10.1080/00206814.2021.1954556?journalCode=tigr20 Rodriguez-Corcho, A. F., Rojas-Agramonte, Y., Barrera-Gonzalez, J. A., Marroquin-Gomez, M. P., Bonilla-Correa, S., Izquierdo-Camacho, D.,... -
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Customizable weather widget
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darc
Durham Adaptive-optics Real-time Controller
darc, the Durham Adaptive optics Real-time Controller. For documentation or darctalk client only, select "View all files". For the latest bleeding-edge version, please use: git clone git://git.code.sf.net/p/darc2/code darc (no password required) (this changed May 2013 due to a sourceforge update). If you use darc, please cite with: Basden, A and Myers, R, MNRAS Vol 242, page 1483, 2012 -
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Pi-Trav
An interactive pi walk.
A simulation and visualization of random walks based on the digits pi. This program also has a settings menu. -
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siFi21
si-Fi is a Software for RNAi (RNA interference) off-target prediction.
si-Fi is a Software for RNAi (RNA interference) off-target prediction The software is designed for checking long-double stranded RNAi constructs for target specificity and silencing efficiency. It can be used also to select sequence regions suitable for designing RNAi constructs. The program provides clear tabular and graphical outputs. -
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Leave A Trace Tools
Tools for reading the track data of the project "Leave a Trace"
...If you want to use the visualization tool, as well, you'll need python2, along with the modules "numpy", "scipy" and "PyQt4". How to use: 1. Start the script 2. click the load button and select a compressed LAT-XML-file 3. click on "render SVG" (save somewhere) -
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Protospacer
Rapid gRNA design and validation for CRISPR
...Each Protospacer database is a simple catalogue of all possible Cas9 target-sites within a given FASTA sequence, i.e. all NGG/NAG sites. Protospacer then allows the user to sub-select targets from the database by gene ID, by exon/intron/UTR location, by sequence similarity, or by genomic co-ordinate. From here, users are able to evaluate potential off targeting, to export results in FASTA format or tabulated (e.g. for Microsoft Excel), and to connect to the Integrative Genomics Viewer (IGVref) and view target-sites in the context of genomic annotations, amino acid translations, and HT-Seq data (for off-target validation). ... -
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SeqSelector
Tools to select sequences for capture enrichment of next-gen libraries
The SeqSelector toolset is a suite of user-friendly, platform independent python scripts to facilitate selection of sequences for targeted enrichment of next-generation libraries through hybridization-based sequence capture. The scripts require no knowledge of programming, and can be applied to genome sequences of model or non-model species. We suggest a workflow in which genes of interest are first identified from previous studies and publicly available datasets of functional gene... -
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PolyCTLDesigner
Python scripts for designing polyepitope T-cell immunogens
...PolyCTLDesigner is also able to choose antigenic peptides covering selected HLA repertoire with desired redundancy rate. Given the antigen sequences PolyCTLDesigner is also able to select T-helper epitopes. For predicting T-cell epitopes it uses TEpredict. -
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Unit Var
Automatic Units and Scale calculation in Python
...This class try to solve this issue, buy instead of numbers use a class that contains both: The number in int,float and the units / reciprocate units. A conversion table is integrated, and preloaded with standard units. But you are not limited to those units. You can define the units you want. You can select between manual register of units, automatic register. You can create and modify different environments to define conversion and the way the output of the units are converted. If you use this class in IPython you get your terms printed in nice LaTeX format. -
15
ARDEN
Specificity Control for Read Alignments Using an Artificial Reference
...It allows the computation of error rates specifically for a dataset and the construction of a ROC-curve. Thereby, it can be used to optimize parameters for read mappers, to select read mappers for a specific problem or also to filter alignments based on quality estimation. -
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Primer Design Tool
Design PCR primers
A simple tool to design DNA primers for mutagenesis in BGME lab (JHU). Allows users to select or enter background sequence and add current and new mutations. During the design process, users are presented with various updating checks to guide them. -
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trimAl can consider several parameters, alone or in multiple combinations, in order to select the most-reliable positions in the alignment. These include the proportion of sequences with a gap, the level of residue similarity and, if several alignments for the same set of sequences are provided, the consistency level of columns among alignments. Moreover, trimAl allows to manually select a set of columns and sequences to be removed from the alignment.
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