Pinned repositories

  1. AEGeAn

    Integrated toolkit for analysis and evaluation of annotated genomes

    C 9 5

  2. BWASP

    Bisulfite-seq data Workflow Automation Software and Protocols

    Python 3

  3. GoRAMPAGE

    GoRAMPAGE - a workflow for promoter detection by 5'-read mapping

    Shell 2

  4. TSRchitect

    Promoter identification from diverse types of large-scale TSS profiling data

    R 1 3

  5. MoVRs

    Motif set Reduction and Validation (MoVRs) - a workflow for the derivation of genome-wide DNA motif detection and vetting

    Perl 1 4

  6. xGDBvm

    Code for the xGDBvm iPlant Atmosphere enabled genome annotation platform

    PHP 1 3

  • Selective and Recursive local Assembler

    C++ 2 GPL-3.0 Updated Sep 12, 2018
  • Bisulfite-seq data Workflow Automation Software and Protocols

    Python 3 GPL-2.0 Updated Sep 7, 2018
  • R functions and scripts to process output from the BWASP workflow

    R 2 3 Updated Sep 7, 2018
  • Promoter identification from diverse types of large-scale TSS profiling data

    R 1 3 Updated Aug 8, 2018
  • Handbook for Brendel Group students, postdocs, and staff

    Python 2 18 Updated Jul 23, 2018
  • A tool to map bisulfite converted sequence reads and determine cytosine methylation states

    Smarty 35 GPL-3.0 Updated May 24, 2018
  • Integrated toolkit for analysis and evaluation of annotated genomes

    C 9 5 ISC Updated Feb 28, 2018
  • Sensitive spliced-alignment of cDNAs or proteins

    Objective-C 1 GPL-3.0 Updated Jan 15, 2018
  • code developed for the analysis of the Rice 3000 Genomes project data

    Shell 3 GPL-3.0 Updated Nov 22, 2017
  • GoRAMPAGE - a workflow for promoter detection by 5'-read mapping

    Shell 2 GPL-2.0 Updated Oct 13, 2017
  • Supplemental documentation for the iLocus paper

    Jupyter Notebook 1 Updated Sep 22, 2017
  • Motif set Reduction and Validation (MoVRs) - a workflow for the derivation of genome-wide DNA motif detection and vetting

    Perl 1 4 GPL-2.0 Updated Aug 9, 2017
  • Code for the xGDBvm iPlant Atmosphere enabled genome annotation platform

    PHP 1 3 GPL-3.0 Updated May 16, 2017
  • Brendel Group - github.io presence

    CSS Updated Jan 15, 2017
  • Targeted reference-guided genome assembly for comparative rice genomics

    Shell 2 5 Updated Jan 9, 2017
  • Fundamental Models and Algorithms in Bioinformatics

    Python 2 8 Updated Oct 25, 2016
  • HymHub is now GenHub

    1 2 Updated Feb 26, 2016
  • Polistes dominula genome project, a collaboration between the Insect Sociogenomics Lab at Iowa State University and the Computational Genome Science Lab at Indiana University

    Makefile 3 2 Updated Jul 25, 2015