sekalylab's repositories
mrnaseq.variant
Variant (SNP, indel) calling based on RNA-Seq following GATK workflow and adapted to CWRU SLURM cluster
unsupflowhelper
Unsupervised analysis for flow cytometry
cellranger-atac
Preprocessing pipeline for single-cell ATAC-seq with 10X Genomics kits
methylSeq
methyl-seq data processing
TV003_prevaccination
Prevaccination study of Dengue vaccine TV003 immunogenicity
UMAP_Phenograph
Flow Cytometry workflow for unsupervised analysis
CITN12_aPD1
Systems immunology characterization of anti-PD1 immunotherapy in the context of HIV-1 infection.
dream
R script for preprocessing of the DREAM respiratory viral challenge
fluomics.lung
R code to reproduce figures of FluOMICS lung analysis
mdsc
R code to reproduce figures of Vaccari M et al. 2009 Front Immunol
p162
ALVAC-SIV alum in RM macaques (Vaccari M. et al., 2016)
p168
ALVAC-SIV/gp120 vs NYVAC-SIV/gp120
scrnaseq
Preprocessing for Seq-well scRNA-seq
Study36
Study36 - ALVAC-HIV vaccine in NHPs
v43
R code to reproduce figures in Vaccari M. et al., 2018
vb012
R code for the transcriptomic analysis of the VB012 study
vb013
Repo for the R code used for the RNA-Seq analysis in Bissa M. et al 2023 Nat Commun
vrc07
VRC07: source code