/vb013

Repo for the R code used for the RNA-Seq analysis in Bissa M. et al 2023 Nat Commun

MIT LicenseMIT

VB013: source code

Fig. 2a

Fig. 2
Fig. 2a: R code [MD]

RNA-Seq analysis

code:

  • preprocessing: [MD]

input:

  • non-normalized (raw) gene counts: [CSV]
  • sample annotation: [XLSX]
  • alignment QC metrics: [TSV]
  • Rhesus Mmul_8 genome annoation: [GTF]

output:

  • raw SeqExpressionSet: [RDA]
  • normalized SeqExpressionSet: [RDA]
  • pre-vaccination substracted SeqExpressionSet: [RDA]
  • DGEGLM list: [RDA], [RDA]