Repositories list

• cellTypeCompositions

  Public
  R

  •

  GNU General Public License v3.0

  •1•1•0•0•Updated Jun 9, 2022Jun 9, 2022

• chiva

  Public
  [Dev] Combined HIV integration site and genomic variant analysis pipeline.

  R

  •

  GNU General Public License v3.0

  •1•0•0•0•Updated May 28, 2021May 28, 2021

• covid_microbiome_2021

  Public
  R

  •1•0•0•0•Updated Jan 30, 2021Jan 30, 2021

• ltrparser

  Public
  R

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  GNU Affero General Public License v3.0

  •0•0•0•0•Updated Jan 25, 2021Jan 25, 2021

• intSiteCaller

  Public
  R

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  GNU General Public License v3.0

  •9•5•10•0•Updated Jan 13, 2021Jan 13, 2021

• HSC_diversity

  Public
  HTML

  •0•2•0•0•Updated Dec 11, 2019Dec 11, 2019

• viral-transmission

  Public
  Code and metadata for viral transmission project

  R

  •1•0•0•0•Updated Nov 27, 2019Nov 27, 2019

• iGUIDE

  Public
  Bioinformatic pipeline for identifying dsDNA breaks induced by designer nucleases (ie. Cas9).

  R

  •

  GNU General Public License v3.0

  •9•0•0•0•Updated Nov 12, 2019Nov 12, 2019

• genomicHeatmapMaker

  Public
  R

  •

  GNU General Public License v3.0

  •3•0•7•0•Updated Mar 28, 2019Mar 28, 2019

• LDppA

  Public
  Latent Dirichlet Process Prior Allocation

  R

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Dec 24, 2018Dec 24, 2018

• lsf-scripts

  Public
  Helper scripts for LSF cluster usage

  Python

  •0•0•0•0•Updated Nov 27, 2018Nov 27, 2018

• GCcontent

  Public
  calculate GC percentage for reference genomes with multiple windows

  R

  •

  GNU General Public License v3.0

  •3•0•2•1•Updated Aug 23, 2018Aug 23, 2018

• intSiteRetriever

  Public
  R

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  GNU General Public License v3.0

  •2•0•1•1•Updated Aug 23, 2018Aug 23, 2018

• fluSera

  Public
  Code for "Sera from individuals with narrowly focused influenza virus antibodies rapidly select viral escape mutations in ovo", A. Davis, 2018

  R

  •0•0•0•0•Updated Jun 11, 2018Jun 11, 2018

• eoe-paper

  Public
  Supporting metadata for the eosinophilic esophagitis study (PRJNA451431)

  0•0•0•0•Updated May 9, 2018May 9, 2018

• INSPIIRED

  Public
  R

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  GNU General Public License v3.0

  •5•14•10•1•Updated Mar 22, 2018Mar 22, 2018

• geneTherapyPatientReportMaker

  Public
  Single patient integration sites report

  R

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  GNU General Public License v3.0

  •3•1•8•0•Updated Mar 21, 2018Mar 21, 2018

• EpigeneticHeatmapMaker

  Public
  R

  •

  GNU General Public License v3.0

  •2•0•2•0•Updated Mar 14, 2018Mar 14, 2018

• bilateria

  Public
  Code for generating figures and statistics for bilaterian animal microbiome project

  R

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

• simIntSiteReads

  Public
  R

  •1•0•3•1•Updated Dec 13, 2017Dec 13, 2017

• hotROCs

  Public
  ROC curve area matrix and heat map

  R

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  GNU General Public License v3.0

  •3•0•0•0•Updated Jul 22, 2016Jul 22, 2016

• CancerGeneList

  Public
  maintain the list of cancer-associated genes

  R

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  GNU General Public License v3.0

  •2•0•3•0•Updated Jul 5, 2016Jul 5, 2016

• intSiteUploader

  Public
  R

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  GNU General Public License v3.0

  •3•1•8•0•Updated Jul 5, 2016Jul 5, 2016

• hiAnnotator

  Public
  Functions for annotating GRanges objects

  R

  •3•0•0•0•Updated Jul 5, 2016Jul 5, 2016

• PacBio_Phage_Bact_Modification

  Public
  Python

  •2•0•0•0•Updated Apr 1, 2016Apr 1, 2016

• PLEASE

  Public
  Data and analysis releated to the Pediatric Longitudinal Study of Elemental Diet and Stool Microbiome Composition study

  0•0•0•0•Updated Mar 28, 2016Mar 28, 2016

• makeUCSCHubFromBedFiles

  Public
  make customer UCSC genome browser hub from bed files

  R

  •1•0•0•0•Updated Dec 9, 2015Dec 9, 2015