Name: mukamel-lab
Type: User
Company: UCSD
Bio: We are the UCSD Computational Neural Data and Dynamics Lab (CNDD). This page hosts software for neural data ranging from imaging to sequencing.
Location: San Diego
Blog: brainome.ucsd.edu
allcools
Toolkit for single-cell DNA methylation analysis.
annoj_cndd
AnnoJ browser customized by Mukamel lab
biccn-mouse-mop
Analysis notebooks for BICCN mouse primary motor cortex project.
biccn2.0_analysis_lims
Coordinate analyses of BICCN molecular data
cellsort
This toolbox includes routines for using principal component analysis (PCA) and independent component analysis (ICA) to extract cellular signals from imaging data sets. A full description and validation of the method is provided in the paper, "Automated Analysis of Cellular Signals from Large-Scale Calcium Imaging Data," Neuron, 63:747 (2009): http://tinyurl.com/cellsort
clustereval
Easy clustering evaluation in MATLAB
deconstorm
deconSTORM software for analyzing single molecule super-resolution microscopy data
deepcpg
Deep neural networks for predicting CpG methylation
epiattend
Single cell epigenome modeling
humanbrainaging
single_nuclei_transcriptome_epigenome_variability
methylpy
methylpy is a whole genome bisulfite sequencing analysis pipeline. It is developed by Mattew D. Schultz.
mop
Multiomics Processing
neug221
Neug221 seminar Fall 2023
notebooks
some ipython notebooks for myself and for sharing
robustlink
A python package that links enhancers to genes using single-cell transcriptomes and epigenomes
scmc_tools
Tools for analysis of single cell methylC-seq (DNA methylation) data
scmdb_py_dev
Single cell methylation data browser
scmdb_py_dev_team_copy
Development version of single cell DNA methylation python browser
singlecellfusion
SingleCellFusion--a tool to integrate single-cell transcriptome and epigenome data
singlecellfusion_enhancerpaper
For SingleCellFusion enhancer paper
singlecellfusion_loompy-obsolete
Methods for integrating multimodal single cell sequencing data, including transcriptome (RNA-Seq) and epigenome (DNA methylation, ATAC-Seq)
snaneu
Single cell analysis of aneuploidy
snapatac
Analysis Pipeline for Single Cell ATAC-seq
snmcseq
Tools for computational analysis of single nuclei methylC-Seq data, as described in Luo, Keown et al. (2017)
storm-analysis
STORM movie analysis code
uskcode
Vilrus Ultimate Starter Kit (USK) Arduino Code
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
An Open Source Machine Learning Framework for Everyone
Django
The Web framework for perfectionists with deadlines.
Laravel
A PHP framework for web artisans
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
Some thing interesting about web. New door for the world.
A server is a program made to process requests and deliver data to clients.
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Some thing interesting about visualization, use data art
Some thing interesting about game, make everyone happy.
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
Microsoft
Open source projects and samples from Microsoft.
Google
Google ❤️ Open Source for everyone.
Alibaba
Alibaba Open Source for everyone
D3
Data-Driven Documents codes.
Tencent
China tencent open source team.
