Repositories list

• RiboSeq_pipeline

  Public
  A pipeline to process RiboSeq fastqs

  Python

  •3•6•0•0•Updated Apr 28, 2020Apr 28, 2020

• FCC_NN

  Public
  Various scripts for NN prediction of enhancer region motifs

  Python

  •0•0•0•0•Updated Jun 20, 2019Jun 20, 2019

• TransferBuddy

  Public
  REST Sequence Data Transfer

  Python

  •

  MIT License

  •0•0•0•0•Updated Sep 18, 2018Sep 18, 2018

• Bubbs

  Public
  Various Lab Utilities

  JavaScript

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Sep 7, 2018Sep 7, 2018

• alignment

  Public
  DNAseq alignment pipelines for use on HPC systems.

  Python

  •1•1•2•0•Updated May 24, 2018May 24, 2018

• RNAseq

  Public
  RNAseq pipeline

  Python

  •2•1•0•0•Updated Apr 19, 2018Apr 19, 2018

• variant_viewer_update_tools

  Public
  Plugin to upload variant reports into variant viewer

  Python

  •1•0•0•0•Updated Apr 11, 2018Apr 11, 2018

• clustermap_tools

  Public
  Somewhat specialized python scripts to create unsupervised hierarchical clustering heat maps

  Python

  •1•0•0•0•Updated Mar 29, 2018Mar 29, 2018

• crispr_donor_pipe

  Public
  Python

  •1•0•0•0•Updated Mar 22, 2018Mar 22, 2018

• mouse_filter

  Public
  Filter mouse reads from a Human PDX derived .bam

  Python

  •2•0•0•0•Updated Mar 15, 2018Mar 15, 2018

• tina

  Public
  Bionimbus Web Remake

  Python

  •0•0•0•0•Updated Mar 13, 2018Mar 13, 2018

• VariantViewer

  Public
  JavaScript

  •

  Apache License 2.0

  •1•0•0•0•Updated Mar 8, 2018Mar 8, 2018

• NMF_unsupervised_clustering

  Public
  Clone of repo created by Dr. Tonya Brunetti for dev purposes

  Python

  •

  MIT License

  •0•0•0•0•Updated Mar 8, 2018Mar 8, 2018

• PDC_scripts

  Public
  Scripts for interacting with OpenStack

  Python

  •1•1•0•0•Updated Dec 11, 2017Dec 11, 2017

• Trim_100bp_fastqs

  Public
  Trim fastqs from 100 base pairs to 50 base pairs

  Python

  •0•0•0•0•Updated Jul 27, 2017Jul 27, 2017

• swift_object_store_utils

  Public
  Python

  •0•0•0•0•Updated Mar 2, 2017Mar 2, 2017

• igsb-account

  Public
  Small app to create IGSB accounts

  HTML

  •0•0•0•0•Updated May 31, 2016May 31, 2016

• hgac_preprocessing

  Public
  Illumina preprocessing daemon

  Python

  •1•0•0•0•Updated May 11, 2016May 11, 2016

• dropseq

  Public
  Dropseq clustering preprocessing pipeline.

  Python

  •0•0•0•0•Updated May 5, 2016May 5, 2016

• PEC_RNAseq_Unified

  Public
  Pipeline logic used for the PsychENCODE RNAseq Unified Analysis

  Python

  •0•1•0•0•Updated May 5, 2016May 5, 2016

• SwiftSeqGUI2

  Public
  SwiftSeq Web-based GUI version 2

  CSS

  •0•0•0•0•Updated Apr 22, 2016Apr 22, 2016

• hgac_backbone

  Public
  LIMS for HGAC at IGSB, built on Polymer and Django

  CSS

  •0•0•0•0•Updated Apr 6, 2016Apr 6, 2016

• NewVariantViewer

  Public
  Python

  •0•0•0•0•Updated Feb 11, 2016Feb 11, 2016

• mw_viewer

  Public
  Module for mw_lims - where the "meat" is

  HTML

  •0•0•0•0•Updated Feb 5, 2016Feb 5, 2016

• mw_lims

  Public
  Python

  •0•0•0•0•Updated Dec 8, 2015Dec 8, 2015

• basic_vm_setup

  Public
  Scripts to simplify an reduce the overhead of firing up a vm and attaching a cinder block

  Python

  •0•0•0•0•Updated Dec 3, 2015Dec 3, 2015

• web_apps_lobby

  Public
  Front page for web apps etc. hosted on igsbimg

  HTML

  •0•0•0•0•Updated Nov 25, 2015Nov 25, 2015

• ATACseq

  Public
  ATACseq pipeline

  Python

  •1•0•0•0•Updated Oct 26, 2015Oct 26, 2015

• SwiftSeqGUI

  Public
  SwiftSeq Web-based GUI version 1

  PHP

  •

  Other

  •0•0•0•0•Updated Jul 13, 2015Jul 13, 2015

• DNAseqSE

  Public
  Python

  •0•0•0•0•Updated May 22, 2015May 22, 2015