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Achievement: StarstruckAchievement: Arctic Code Vault ContributorAchievement: Pull Sharkx2

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  • DANPOS3 Public

    Updated DANPOS2 to work with python3

    Python 20 5 Updated Feb 23, 2024

  • GreenscreenProject Public

    HTML 5 1 GNU General Public License v3.0 Updated Aug 10, 2022

  • ChIP_Annotation Public

    code to annotate a ChIP peak file in BED format (6 columns)

    Python 2 1 MIT License Updated Feb 23, 2022

  • remap-pipeline Public

    Forked from remap-cisreg/remap-pipeline

    As the ReMap project expands dramatically and regulatory catalogs for other species are requested, it becomes essential to enable joint efforts between the ReMap team and external teams. This is es…

    Python Updated Sep 16, 2020

  • Blacklist Public

    Forked from Boyle-Lab/Blacklist

    Application for making ENCODE Blacklists

    C++ GNU General Public License v3.0 Updated Jul 23, 2020

  • IDR_comparison_pipeline Public

    This code follows ENCODEs pipeline for running IDR (Li et al 2011)

    Python Updated Aug 26, 2019

  • python_bootcamp Public

    Forked from PennGCB/python_bootcamp

    Course materials for 4 week python programming bootcamp at Penn

    Jupyter Notebook MIT License Updated Aug 23, 2019

  • scipy-cookbook Public

    Forked from scipy/scipy-cookbook

    Scipy Cookbook

    Jupyter Notebook Other Updated Aug 6, 2019

  • make_our_own_kaggle Public

    Repository for Penn PDSG to Build our Own Kaggle Competition

    1 Updated Dec 13, 2018

  • penndatasci_googleStore_kaggle Public

    Repo for all the Penn Data Science Group to store their scripts and inputs for the Google Store data science competition

    Jupyter Notebook 1 Updated Oct 25, 2018

  • peakPass Public

    Forked from ewimberley/peakPass

    Create ChIP-Seq blacklists automaticaly and validate them.

    R GNU General Public License v3.0 Updated Oct 2, 2018

  • phantompeakqualtools Public

    Forked from kundajelab/phantompeakqualtools

    This package computes informative enrichment and quality measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be used to obtain robust estimates of the predominant fragment length …

    R BSD 3-Clause "New" or "Revised" License Updated Aug 27, 2018

  • deepTools Public

    Forked from deeptools/deepTools

    Tools to process and analyze deep sequencing data.

    Python GNU General Public License v3.0 Updated Aug 15, 2018

  • CIS-545-Big-Data-Analytics-Spring-2018- Public

    CIS 545: Big Data Analytics (Spring 2018)

    Jupyter Notebook MIT License Updated Feb 26, 2018

  • spp Public

    Forked from hms-dbmi/spp

    SPP - R package for analysis of ChIP-seq and other functional sequencing data

    C++ Updated May 26, 2017

  • gcb_studyguide Public

    Forked from gwaybio/gcb_studyguide

    Resource for GCB study materials

    BSD 3-Clause "New" or "Revised" License Updated May 4, 2017

  • BIS180L_web Public

    Forked from mfcovington/BIS180L_web

    Course Website for UC Davis BIS180L

    HTML GNU General Public License v3.0 Updated Mar 8, 2017

  • cpython Public

    Forked from python/cpython

    The Python programming language

    Python Other Updated Feb 23, 2017

  • coge Public

    Forked from LyonsLab/coge

    CoGe (Comparative Genomics) Platform

    Perl BSD 2-Clause "Simplified" License Updated Feb 1, 2017

  • computational-reagents Public

    Forked from greenelab/computational-reagents

    Rigor, Reproducibility, Transparency, and Reagent Validity for Computational Biologists

    HTML Creative Commons Attribution 4.0 International Updated Jan 24, 2017

  • idr Public

    Forked from nboley/idr

    IDR

    Python GNU General Public License v2.0 Updated Aug 31, 2016

  • TDMresults Public

    Forked from greenelab/TDMresults

    Scripts and data for re-creating TDM results.

    R BSD 3-Clause "New" or "Revised" License Updated Apr 14, 2016

  • adage Public

    Forked from greenelab/adage

    This is the repository for ADAGE (Analysis using Denoising Autoencoders for Gene Expression)

    Python BSD 3-Clause "New" or "Revised" License Updated Jan 13, 2016

  • Galaxy Public

    Forked from modENCODE-DCC/Galaxy

    modENCODE Galaxy on Amazon Cloud

    Batchfile Updated Nov 13, 2014