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    27 repositories

    • TGFB-IFN_SIV_reservoir_control

      Public
      Bioinformatic analysis of the transcriptional response in aIL10-aPD1 treated SIV-infected rhesus macaques
      MIT License
      •1•0•0•0•Updated Feb 17, 2026Feb 17, 2026

    • mRNASeq

      Public
      Shell
      •
      GNU General Public License v3.0
      •1•2•0•0•Updated Jul 23, 2024Jul 23, 2024

    • joana

      Public
      R code to reproduce the transcriptomic analysis of the Dias/Koup project
      MIT License
      •0•1•0•0•Updated Jul 23, 2024Jul 23, 2024

    • p168

      Public
      ALVAC-SIV/gp120 vs NYVAC-SIV/gp120
      MIT License
      •0•0•0•0•Updated Jun 22, 2024Jun 22, 2024

    • rv144

      Public
      R code to generate the figure of RV144 transcriptomic study
      MIT License
      •1•1•0•0•Updated Jun 22, 2024Jun 22, 2024

    • TV003_prevaccination

      Public
      Prevaccination study of Dengue vaccine TV003 immunogenicity
      0•0•0•0•Updated May 14, 2024May 14, 2024

    • dual_blockade_IL-10_PD-1_SIV

      Public
      Ribeiro et al. Dual blockade of IL-10 and PD-1
      MIT License
      •0•0•0•0•Updated Jan 3, 2024Jan 3, 2024

    • unsupflowhelper

      Public
      Unsupervised analysis for flow cytometry
      HTML
      •0•1•0•0•Updated Aug 23, 2023Aug 23, 2023

    • vb013

      Public
      Repo for the R code used for the RNA-Seq analysis in Bissa M. et al 2023 Nat Commun
      sivbioinformatics-analysisvaccine
      sivbioinformatics-analysisvaccine
      MIT License
      •0•1•0•0•Updated Jan 16, 2023Jan 16, 2023

    • CITN12_aPD1

      Public
      Systems immunology characterization of anti-PD1 immunotherapy in the context of HIV-1 infection.
      0•0•0•0•Updated Oct 29, 2022Oct 29, 2022

    • dream

      Public
      R script for preprocessing of the DREAM respiratory viral challenge
      0•0•0•0•Updated Jan 26, 2022Jan 26, 2022

    • em131

      Public
      0•0•0•0•Updated Jan 23, 2022Jan 23, 2022

    • cellranger-atac

      Public
      Preprocessing pipeline for single-cell ATAC-seq with 10X Genomics kits
      Python
      •0•1•0•0•Updated Dec 7, 2021Dec 7, 2021

    • Study36

      Public
      Study36 - ALVAC-HIV vaccine in NHPs
      0•0•0•0•Updated Jul 27, 2021Jul 27, 2021

    • spaceranger

      Public
      Shell
      •0•0•0•0•Updated Feb 19, 2021Feb 19, 2021

    • scrnaseq

      Public
      Preprocessing for Seq-well scRNA-seq
      Shell
      •1•0•0•0•Updated Jan 30, 2021Jan 30, 2021

    • Ashish---generic-scripts

      Public
      R
      •0•0•0•0•Updated May 16, 2020May 16, 2020

    • UMAP_Phenograph

      Public
      Flow Cytometry workflow for unsupervised analysis
      R
      •0•0•0•0•Updated Apr 25, 2020Apr 25, 2020

    • v43

      Public
      R code to reproduce figures in Vaccari M. et al., 2018
      0•0•1•0•Updated Apr 18, 2020Apr 18, 2020

    • p162

      Public
      ALVAC-SIV alum in RM macaques (Vaccari M. et al., 2016)
      0•0•0•0•Updated Apr 18, 2020Apr 18, 2020

    • methylSeq

      Public
      methyl-seq data processing
      C
      •0•0•0•0•Updated Mar 2, 2020Mar 2, 2020

    • vb012

      Public
      R code for the transcriptomic analysis of the VB012 study
      0•0•0•0•Updated Dec 3, 2019Dec 3, 2019

    • fluomics.lung

      Public
      R code to reproduce figures of FluOMICS lung analysis
      0•0•0•0•Updated Nov 15, 2019Nov 15, 2019

    • vrc07

      Public
      VRC07: source code
      0•0•0•0•Updated Jul 25, 2019Jul 25, 2019

    • mdsc

      Public
      R code to reproduce figures of Vaccari M et al. 2009 Front Immunol
      0•0•0•0•Updated Apr 26, 2019Apr 26, 2019

    • Methyl-seq

      Public
      C
      •0•0•0•0•Updated Feb 4, 2019Feb 4, 2019

    • mrnaseq.variant

      Public
      Variant (SNP, indel) calling based on RNA-Seq following GATK workflow and adapted to CWRU SLURM cluster
      Shell
      •0•2•0•0•Updated Jun 27, 2018Jun 27, 2018
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