Skip to content
View mukamel-lab's full-sized avatar
25 followers · 2 following

Achievements

Achievement: StarstruckAchievement: Arctic Code Vault ContributorAchievement: Pull Shark

Achievements

Achievement: StarstruckAchievement: Arctic Code Vault ContributorAchievement: Pull Shark

Block or report mukamel-lab

Block user

Prevent this user from interacting with your repositories and sending you notifications. Learn more about blocking users.

You must be logged in to block users.

Please don't include any personal information such as legal names or email addresses. Maximum 100 characters, markdown supported. This note will be visible to only you.
Report abuse

Contact GitHub support about this user’s behavior. Learn more about reporting abuse.

Report abuse

  • slavseq_browser Public

    IGV browser for viewing slav-seq data

    PHP 1 Updated Dec 20, 2024

  • SunQuake_Nature2024_Reanalysis Public

    Reanalysis of data from Sun et al., Nature 2024 (https://doi.org/10.1038/s41586-023-07011-6)

    Jupyter Notebook GNU General Public License v3.0 Updated Jul 23, 2024

  • HumanBrainAging Public

    Forked from JFchien/HumanBrainAging

    single_nuclei_transcriptome_epigenome_variability

    Jupyter Notebook 1 2 Updated Mar 27, 2024

  • snAneu Public

    Single cell analysis of aneuploidy

    Jupyter Notebook Updated Feb 27, 2024

  • NEUG221 Public

    Neug221 seminar Fall 2023

    Updated Oct 4, 2023

  • annoj_cndd Public

    AnnoJ browser customized by Mukamel lab

    JavaScript Updated Sep 20, 2023

  • robustlink Public

    Forked from FangmingXie/robustlink

    A python package that links enhancers to genes using single-cell transcriptomes and epigenomes

    Python 3 MIT License Updated May 9, 2023

  • EpiAttend Public

    Single cell epigenome modeling

    Python 3 MIT License Updated Dec 1, 2022

  • SingleCellFusion_EnhancerPaper Public

    Forked from FangmingXie/scf_enhancer_paper

    For SingleCellFusion enhancer paper

    Jupyter Notebook MIT License Updated Aug 8, 2022

  • SingleCellFusion Public

    Forked from FangmingXie/SingleCellFusion_dev

    SingleCellFusion--a tool to integrate single-cell transcriptome and epigenome data

    Jupyter Notebook 12 GNU General Public License v3.0 Updated Mar 13, 2022

  • ALLCools Public

    Forked from lhqing/ALLCools

    Toolkit for single-cell DNA methylation analysis.

    Python MIT License Updated Dec 1, 2021

  • methylpy Public

    Forked from yupenghe/methylpy

    methylpy is a whole genome bisulfite sequencing analysis pipeline. It is developed by Mattew D. Schultz.

    Python Other Updated Mar 22, 2021

  • SingleCellFusion_Loompy-Obsolete Public

    Methods for integrating multimodal single cell sequencing data, including transcriptome (RNA-Seq) and epigenome (DNA methylation, ATAC-Seq)

    Python 2 1 GNU General Public License v2.0 Updated Jan 11, 2021

  • SnapATAC Public

    Forked from r3fang/SnapATAC

    Analysis Pipeline for Single Cell ATAC-seq

    R GNU General Public License v3.0 Updated Jan 4, 2021

  • BICCN2.0_Analysis_LIMS Public

    Coordinate analyses of BICCN molecular data

    Jupyter Notebook Updated Oct 12, 2020

  • BICCN-Mouse-MOp Public

    Analysis notebooks for BICCN mouse primary motor cortex project.

    Jupyter Notebook 1 Updated Sep 30, 2020

  • snmcseq Public

    Tools for computational analysis of single nuclei methylC-Seq data, as described in Luo, Keown et al. (2017)

    Python 8 3 Updated Dec 6, 2019

  • mop Public

    Multiomics Processing

    Python 3 1 GNU General Public License v3.0 Updated Oct 15, 2019

  • clustereval Public

    Forked from taehoonlee/clustereval

    Easy clustering evaluation in MATLAB

    MATLAB Updated Apr 23, 2019

  • scmdb_py_dev_team_copy Public

    Forked from mukamel-lab-team/scmdb_py_dev

    Development version of single cell DNA methylation python browser

    Python Updated Dec 20, 2018

  • deconSTORM Public

    deconSTORM software for analyzing single molecule super-resolution microscopy data

    C Updated Aug 26, 2018

  • CellSort Public

    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 valid…

    MATLAB 25 17 Updated Aug 18, 2018

  • storm-analysis Public

    Forked from ZhuangLab/storm-analysis

    STORM movie analysis code

    Python Updated Aug 14, 2018

  • scmdb_py_dev Public

    Forked from mukamel-lab-team/scmdb_py

    Single cell methylation data browser

    Python Updated Sep 13, 2017

  • deepcpg Public

    Forked from cangermueller/deepcpg

    Deep neural networks for predicting CpG methylation

    Python MIT License Updated Jul 27, 2017

  • scmc_tools Public

    Tools for analysis of single cell methylC-seq (DNA methylation) data

    Python GNU General Public License v3.0 Updated Jan 27, 2017

  • notebooks Public archive

    some ipython notebooks for myself and for sharing

    C Updated Jun 2, 2015

  • uskcode Public

    Forked from christiangenco/uskcode

    Vilrus Ultimate Starter Kit (USK) Arduino Code

    Arduino Updated May 6, 2015