Repositories list

• 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•0•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

  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•1•0•0•Updated Jun 27, 2018Jun 27, 2018