@databio

Databio

Computational biology at UVA

Pinned repositories

  1. pepatac

    A modular, containerized pipeline for ATAC-seq data processing

    Python 9

  2. refgenie

    Create a standardized format for reference genome files and indexes

    Python 3 2

  3. simpleCache

    Simplified R caching for reproducible big data projects

    R 22 3

  4. pypiper

    Python toolkit for building restartable pipelines

    Python 21 5

  5. MIRA

    R package for Methylation-based Inference of Regulatory Activity

    R 5 2

  6. LOLAweb

    An interactive Shiny web application for genomic interval enrichment analysis using the LOLA package.

    R 7

  • tutorials on how to use the lab's tools

    Updated Oct 19, 2018
  • A method for annotation of principal components by region set enrichment

    R 5 Updated Oct 19, 2018
  • Python toolkit for building restartable pipelines

    Python 21 5 BSD-2-Clause Updated Oct 17, 2018
  • Create a standardized format for reference genome files and indexes

    Python 3 2 Updated Oct 12, 2018
  • Python 6 1 Updated Oct 12, 2018
  • A modular, containerized pipeline for ATAC-seq data processing

    Python 9 Updated Oct 11, 2018
  • An interactive Shiny web application for genomic interval enrichment analysis using the LOLA package.

    R 7 Updated Oct 2, 2018
  • Generates a countTable from a PEP for DESeq analysis

    R Updated Sep 21, 2018
  • Python Updated Sep 5, 2018
  • Python 1 Updated Aug 18, 2018
  • Simplified R caching for reproducible big data projects

    R 22 3 Updated Aug 2, 2018
  • R package for calculating and plotting the distribution of genomic ranges across the genome.

    R 2 1 Updated Jul 6, 2018
  • Cleaner R workspaces

    R Updated Jul 6, 2018
  • R project initialization

    R 1 Updated Jul 6, 2018
  • Chimeric transcript discovery

    R GPL-3.0 Updated May 25, 2018
  • Makefile Updated May 23, 2018
  • Manage distributed input and output data locations with folder functions

    R Updated May 17, 2018
  • Python 1 Updated Apr 24, 2018
  • R package for Methylation-based Inference of Regulatory Activity

    R 5 2 Updated Apr 20, 2018
  • Base Docker image for Shiny-based web apps.

    1 Updated Apr 10, 2018
  • Calculating epigenetic heterogeneity

    R 1 Updated Feb 26, 2018
  • A shiny app to visualize gene expression data from clustered cells

    R 1 Updated Nov 10, 2017
  • Jupyter Notebook 4 Updated Nov 9, 2017
  • Decoy alignment sequences

    1 Updated Nov 1, 2017
  • Small test data from various data types for testing pipelines

    Shell 2 Updated Oct 31, 2017
  • Python 3 Updated Oct 9, 2017
  • Parses bisulfite sequencing data

    R Updated Sep 5, 2017
  • Python Updated Jan 27, 2017
  • Top languages

    Loading…

    Most used topics

    Loading…