Search Results for "sensitivity" - Page 2
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Showing 83 open source projects for "sensitivity"
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StochSD
CSS package for contin., discrete and combined modelling & simulation
...In particular, StochSD includes features for stochastic modelling and post analysis of multiple simulations followed by presentation of the results in statistical form. Tools for Sensitivity Analysis, Optimization and Statistical Analysis are parts of StochSD. -
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Syntax Untangler
Teach your students how to figure out tricky texts in any language.
Web-based activity that asks the learner to visually mark up a short primary text in any language, in order to improve small-scale reading skills. Students get instant feedback to actions. Instructors use Web-based authoring interface to write and publish their content and questions in any language (Unicode). -
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MAGeCK
Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout
MAGeCK2 is here: https://github.com/davidliwei/mageck2 Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout (MAGeCK) is a computational tool to identify important genes from the recent genome-scale CRISPR-Cas9 knockout screens technology. For instructions and documentations, please refer to the wiki page. MAGeCK is developed by Wei Li and Han Xu from Dr. Xiaole Shirley Liu's lab at Dana-Farber Cancer Institute/Harvard School of Public Health, and is maintained by Wei Li lab at... -
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ExtIO_RTLTCP_improved
Improved ExtIO_RTLTCP.dll for Linux (and Windows)
I programmed an enhanced version of this DLL: https://github.com/roseengineering/ExtIO_RTLTCP. My project shall help you to use high-quality SDR software like HDSDR together with your RTLSDR USB stick also on Linux. On Linux, install WINE (the Windows software emulator) and the normal Windows version of HDSDR (in WINE). Best is if you build the needed rtl_tcp from https://github.com/librtlsdr/librtlsdr. If that is not possible for you install the Rtl-sdr package from the repository... -
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Allelome.PRO
A pipeline to define allele-specific genomic features
...Allelome.PRO offers increased sensitivity to analyse lowly expressed transcripts, together with a robust false discovery rate empirically calculated from variation in the sequencing data. -
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Metal detector based on RP2040
Pulse induction metal detector using Raspberry Pi Pico board ( RP2040)
Based on Raspberry Pi Pico board, this metal detector is included in pulse induction metal detectors category, with well known advantages and disadvantages. RPi Pico generate 3,3v amplitude pulses at one of GPIO pins. This pulses are amplified and applied to a MOSFET device that had the searching coil in series with drain. The pulse will produce a magnetic field generated by the searching coil, and becose of eddy currents, the target will produce a very low corresponding voltage at the... -
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lpsolve
Mixed Integer Linear Programming (MILP) solver.
Mixed Integer Linear Programming (MILP) solver lp_solve solves pure linear, (mixed) integer/binary, semi-cont and special ordered sets (SOS) models.lp_solve is written in ANSI C and can be compiled on many different platforms like Linux and WINDOWS This project is moved to github: https://lp-solve.github.io/ -
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Milton
An infinite-canvas paint program
Milton is an open-source, infinite-canvas paint program that allows artists to sketch, draw, and paint without the constraints of a fixed canvas size. It combines the intuitive feel of raster-based painting with the scalability of vector graphics, enabling users to focus on creativity without worrying about resolution or canvas boundaries. -
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Sensitizer
A toolset to automate STOP analysis with Zemax OpticStudio
SENSITIZER is an ESO software toolset written in Matlab and Mathematica aiming at automating some Structural/Thermal/Optical Performance (STOP) sensitivity analyses with Zemax OpticStudio (ZOS). The core code of SENSITIZER runs in MATLAB and drives ZOS in the background through the ZOS-API interface, based on .NET. The output is saved in the MATLAB file format and can be post-processed using MATLAB and/or Mathematica routines. The optical system to analyze is defined in a normal Zemax lens file. ... -
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Batch PIE
A batch pipelined image editor
Current filter functionality: - Simple editing options: Image cropping, resizing, rotation, Color brightness curve alignment - Histobram processing: Convolution, statistics (e. g. f_max or median analysis) - Image segmentation: The actual segmentation process as well as group weight calculation for further filtering (both functions rely on self defined custom dynamic mathematical functions) - Dynamic mathematical functions for custom and automated image filtering: General mathematical operations, using image or matrix as f(x, y), export f(x, y) as image or matrix, mapping variables on other ones and of course boolean operation for case sensitivity - A flexible variables model of dynamic mathematical function that sets no restriction on particular variables count - Sub project support for an organized total process targeting to save time using previously created editing routines instead of redoing steps each time -
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Butteraugli
Estimates the psychovisual difference between two images
butteraugli is a perceptual similarity metric designed to estimate how noticeable differences between two images will be to the human eye. Instead of simple pixel math, it models aspects of human vision—color sensitivity, spatial masking, and contrast perception—to highlight differences that viewers actually see. The core tool outputs a single “distance” score along with per-pixel or per-region maps that show where artifacts are most objectionable. These maps make it practical to tune compressor settings and confirm whether bitrate reductions are visually acceptable. ... -
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HTMLMinifier
Javascript-based HTML compressor/minifier (with Node.js support)
...However, they form long repetitive chains of characters that should improve compression ratio of gzip used in HTTP compression. SVG tags are automatically recognized, and when they are minified, both case-sensitivity and closing slashes are preserved, regardless of the minification settings used for the rest of the file. HTMLMinifier can't work with invalid or partial chunks of markup. This is because it parses markup into a tree structure, then modifies it (removing anything that was specified for removal, ignoring anything that was specified to be ignored, etc.), then it creates a markup out of that tree and returns it. -
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Deep Learning for Medical Applications
Deep Learning Papers on Medical Image Analysis
...It includes Jupyter notebooks, model architectures, data preprocessing pipelines, and evaluation scripts specific to medical imaging tasks. The repository may also contain domain-specific modules: loss functions like Dice, focal loss, metrics such as sensitivity/recall/IoU, and visualization utilities for overlaying segmentation masks. -
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ATLAS_mPBPK
Modeling and Simulation of mPBPK models
ATLAS mPBPK is a MATLAb-based tool for modeling and Simulation of minimal Physiology Based Pharmacokinetic (mPBPK) models of small and large molecules. The tool enables the users to perform: i) PK data visualization, ii) simulation, iii) parameter optimization, and iv) local sensitivity analysis (SA) of mPBPK models in a simple and efficient manner. -
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RxCalc
RxCalc is a calculator for the analysis of multi-stage receiver.
RxCalc is a calculator for the analysis of multi-stage receiver. The software can calculate cascaded and system parameters: gain, noise, sensitivity, input and output P1dB and IP3, noise floor, spur-free dynamic range, MDS, SNR, and others. Sources code: https://github.com/arhiv6/rxcalc Binary package: http://sourceforge.net/projects/rxcalc/ -
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Reliability Sensitivity Analysis
Reliability sensitivity analysis in a single spreadsheet using VBA
1- Define random variables using mean and standard deviation 2- Define limit state function 3- Get the sensitivity derivatives with respect to all random variables -
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CELLX
Integrates expression, CNV, mutation, compound, and meta data.
CELLX is an informatics infrastructure to manage multi-dimensional genomics datasets containing expression, copy number variation, mutation, and compound sensitivity information. A browser based web page enables an accessible way to visualize, analyze, and download the database data in a pre-formatted table suitable for offline computation. CELLX is presently focused on supporting oncology precision medicine through the evaluation of preconceived hypotheses as well as unbiased, data driven hypothesis generation. ... -
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A, freely-available software tool for quality control in LC-HRMS based metabolomics studies. The software determines quality related parameters, including mass accuracy, mass precision, detector sensitivity and retention time stability. It makes use of generic data formats and has been designed for the processing of pre-selected metabolic features from various types of QC samples within and across LC-HRMS measurement sequences. The program helps to verify data consistency, measurement precision and stability of large scale biological experiments. *** *** *** *** *** *** *** *** *** *** *** *** *** *** *** Actual version: QCScreen_Main.exe Please setup required software first (install R-2.12.0 and set R_HOME environment variable). ...
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PyMathProg
An easy and flexible mathematical programming environment for Python.
PyMathProg is a Python reincarnation of AMPL and GNU MathProg modeling language, implemented in pure Python, connecting to GLPK via swiglpk. Create, optimize, report, change and re-optimize your model with Python, easily integrate database, plotting, etc. -
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BisSNP
Bisulfite-seq/NOMe-seq SNPs & cytosine methylation caller
...It uses bayesian inference with either manually specified or automatically estimated methylation probabilities of different cytosine context(not only CpG, CHH, CHG in Bisulfite-seq, but also GCH et.al. in other bisulfite treated sequencing) to determine genotypes and methylation levels simultaneously. It works for both of single-end and paired-end reads.Specificity and sensitivity has been validate by Illumina IM SNP array. In default threshold 30X data (Phred scale score > 20), it could detect 92.21% heterozygous SNPs with 0.14% false positive rate Cytosine calling is not only based on reference context, so it could detect non-reference cytosine context. Google group for help: http://goo.gl/zL7Nj -
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AIRVF was developed to increase accuracy of low-frequency variant calling. Our zip file contains programs for both Window and Linux. AIRVF demonstrated higher precision and sensitivity by accurately detecting SNVs with low VAF in Ion Torrent data. If you cannot install Torrent Suite in non-Ubuntu Linux servers, the AIRVF and VarScan2 pipeline can be a good alternative. But combination of SNVs from VarScan2 and indels from Torrent Variant Caller-Ion Reporter will demonstrate the best performance. It's fast.
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INTEGRATE: Calling gene fusions with exact fusion junctions and genomic breakpoints by combining RNA-Seq and WGS data. To download source code, reference manual and test case, please go to 'Files'. Also refer to 'Wiki' for details.
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MUMAL2
Multivariate analysis of MS/MS data using ML techniques
Program described in the paper: MUMAL2: Improving sensitivity in shotgun proteomics using cost sensitive artificial neural networks and a threshold selector algorithm, 2016. By Fabio R. Cerqueira; Adilson M. Ricardo; Alcione P. Oliveira; Armin Graber; Christian Baumgartner. -
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To speed up the alignment of DNA reads or assembled contigs against a protein database has been a challenge up to now. The recent tool DIAMOND has signi cantly improved the speed of BLASTX and RAPSearch, with a similar degree of sensitivity. Yet for applications like metagenomics, where a large amount of data is involved, DIAMOND still takes too much time. We introduce AC-DIAMOND, which attempts to speed up DIAMOND via better SIMD parallelization and reference indexing. Experimental results show that AC-DIAMOND is about 4 times faster than DIAMOND on aligning DNA reads or contigs while retaining the essentially the same sensitivity.
