Search Results for "deconvolution"
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Showing 24 open source projects for "deconvolution"
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NODE_deconvolution
A Python program for deconvolution spatial transcriptomics data and in
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Image16
Image viewer/editor specialized in astrophotography 16bits processing
...Blurring (bilateral, threshold and chroma/luma). Unsharp Masking, Laplacian. Masked Undo. Curve Undo, LCE. CLAHE. SCNR. Wavelets decomposing and denoising. Lucy-Richardson and Wiener deconvolution. FFT contrasting/denoising. Uses Astrometry.net to platesolve images. Includes Bright Star Catalogue up to mag. 5 and Tycho 2 Catalogue up to mag. 12 allowing for Star B-V color data for color balancing plate solved images. Interfaces with ASCOM, G'MIC and Starnet++. Macros. EAA. Win>=7 and Linux+Wine>=7. -
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BioXTAS RAW
Processing and analysis of Small Angle X-ray Scattering (SAXS) data.
...The software enables: creation of 1D scattering profiles from 2D detector images, standard data operations such as averaging and subtraction, analysis of radius of gyration (Rg) and molecular weight, and advanced analysis using GNOM and DAMMIF as well as electron density reconstructions using DENSS. It also allows easy processing of inline SEC-SAXS data and data deconvolution using the evolving factor analysis (EFA) or the regularized alternating least squares (REGALS) methods. Active source code is now maintained on github: https://github.com/jbhopkins/bioxtasraw To install: Check the instructions available at: http://bioxtas-raw.readthedocs.io/en/latest/install.html and in the Files tab. ... -
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Eventer
Rapid, unbiased, reproducible analysis of synaptic events
Eventer is a programme designed for the detection of spontaneous synaptic events measured by electrophysiology or imaging. The software combines deconvolution for detection, and variable length template matching approaches for screening out false positive events. Eventer also includes a machine learning-based approach allowing users to train a model to implement their ‘expert’ selection criteria across data sets without bias. Sharing models allows users to implement consistent analysis procedures. ... -
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SEM3De
ImageJ plugin to enhance stack of images acquired by SEM
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ANDTool
Analysis Nuclei DAB (AND) Tool
...The tool requires as input the original RGB images, and the FastRed, FastBlue, DAB channel, easily obtained using the Fiji function: "ImageJ" -> "Image" -> "Colour Deconvolution" -> "FastRed FastBlue DAB" Then, the tool first segment the nuclei using the FastBlue channel and the DAB channel, and then computes statistics by subdividing the sample in three regions according to the FastRed channel: a dark-red ROI, a light-pink ROI and a white ROI. ANDTool is written in MATLAB (The MathWorks, Inc., Massachusetts, USA) and the source code and standalone versions are here available for download. ... -
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DEBay
Deconvolutes qPCR data to estimate cell-type-specific gene expression
DEBay: Deconvolution of Ensemble through Bayes-approach DEBay estimates cell type-specific gene expression by deconvolution of quantitative PCR data of a mixed population. It will be useful in experiments where the segregation of different cell types in a sample is arduous, but the proportion of different cell types in the sample can be measured. -
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De_Lux
Deconvolution of luminescence cross-talk in microplate reader data
An algorithm to deconvolve the luminescence cross-talk in high-throughput gene expression profiling to recover the true luminescence activity of a microplate. -
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BlockSparse
Efficient GPU kernels for block-sparse matrix multiplication
The blocksparse repository provides efficient GPU kernels (TensorFlow custom ops) for block-sparse matrix multiplication and convolution operations. The idea is to exploit block-level sparsity — i.e. treat matrices or weight tensors as composed of blocks, many of which may be zero or unused — to save compute and memory when sparsity patterns are structured. This is particularly useful in models like Sparse Transformers, where attention matrices or intermediate layers may adopt block-sparse... -
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MAT-MECAS
Cell impedance analysis software.
MAT-MECAS is used for calculation of impedance parameters of a cell from recorded current responses elicited by bipolar voltage stimuli in a whole-cell patch-clamp experiment. The calculations are based on a FFT deconvolution procedure and on approximation of the reconstructed currents with a theoretical function. The impulse response of the signal path is necessary for the calculations. Read manual first! For testing MAT-MECAS we provide a sample data along with sample stimulation protocols. -
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An open-source implementation of our network-based target deconvolution approach, named target addiction score (TAS). License: The TAS R-package is made available under the terms of the GNU General Public License, which means that the source code is freely available for use within other software, but if you alter the code and distribute it, you must make the new source code freely available as well.
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deconvolv
deconvolv: convolution and deconvolution of WAV files
deconvolv: convolution and deconvolution of WAV files Supported signal processing functions: correlation, convolution, de-convolution, convolution with Hilbert transformation, de-convolution with Hilbert transformation Copyright (c) 2008-2016 by Klaus Michael Indlekofer. All rights reserved. Note: Special restrictions apply. See disclaimers below and within the distribution. -
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Matlab software for analysis of skin conductance data (SC; viz., electrodermal activity, EDA; galvanic skin response, GSR). Data decomposition and scientific analysis based on deconvolution approach. Various functions via GUI or batch-mode.
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ThermV
Comprehensive thermal analysis software package
...The modules for peak deconvolution, peak profile analysis and determination of Ea and lnA will be provided first. Full GUI will be provided in beta stage. Due to computational limitations, the code is partly programmed in Python and partly in R. Python code will eventually be fully integrated into GUI. R code might remain standalone, although it will be integrated to a highest possible degree. -
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BRACIL
ChIP-seq analysis tool
Binding Resolution Amplifier and Cooperative Interaction Locator (BRACIL) is a blind-deconvolution model that integrates ChIP-seq coverage with motif discovery. BRACIL predicts binding site locations with high-resolution and also cooperative interactions in ChIP-seq data. -
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DeconvDemo
An image deconvolution / deblur software
DeconvDemo is a Qt & opencv based image deconvolution/ deblur software which is including the spatial and frequency domain solver. image deconvolution / deblur software with non-blind deconvolution algorithm New: Add pregressive non-blined deconvolution Add blind kernel estimation Implemented mehtod: METHOD_WIENER, METHOD_TIKHONOV, METHOD_LUCY_RICHARDSON, METHOD_CONJUGATE_GRADIENT, METHOD_SPARSE_PRIOR, METHOD_GAUSSIAN_PRIOR, METHOD_NAIVE_EDGE_ENHANCEMENT, METHOD_CONVOLUTION, METHOD_PROGRESSIVE, METHOD_BLIND_KERNEL Improving: sparse prior blind deconvolution. ... -
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Parallel HRRT Deconvolution is a multithreaded ImageJ plugin for motion correction of PET brain images.
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Arpeggio
Harmonic analysis of ChIP-seq experiments
...Importantly, these interaction patterns broadly reflect the biological properties of the binding events. To generate these profiles, termed Arpeggio profiles, we applied harmonic deconvolution techniques to the autocorrelation profiles of the ChIP-seq signals. A detailed tutorial is available in the Wiki page (http://sourceforge.net/p/arpeggio/wiki/Home/) -
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The Newton NMR Analysis framework is a Java-based application being developed at NMRFAM for performing n-dimensional spectral deconvolution of biomolecular NMR data sets by fast maximum likekihood reconstruction.
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artDeco
Deconvolution map-making code for CMB experiments
Code release accompanying the paper "ArtDeco: A beam deconvolution code for absolute CMB measurements", available at http://arxiv.org/abs/1208.1399. -
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MCDfit: A spectroscopic tool for Multiple Curve Deconvolution and fitting. It is a plotting program for analysis rather than presentation. It can be used for fitting Magnetic Circular Dichroism (MCD) spectroscopy. It uses the Qt, Qwt, Qwtplot3d libraries
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This is a collection of ImageJ macros (scripts) for performing color deconvolution and analysis of immunohistochemistry (IHC) staining on tissue microarray (TMA) images
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