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1. RNAseq-workflow RNAseq-workflow Public

   A repository for setting up a RNAseq workflow

   R 419 182

2. MicrobeDS MicrobeDS Public

   A repository for large-scale microbiome datasets, formatted for phyloseq

   R 33 7

3. HANSolo-manuscript HANSolo-manuscript Public

   Identification of patient-specific T cell neoantigens through HLA-agnostic genetic screens (Cattaneo et al, Nature Biotechnology, 2023)

   HTML 2 1

4. tumor-microbiome tumor-microbiome Public

   A pan-cancer analysis of the microbiome in metastatic cancer (Battaglia et. al, Cell, 2024)

   R 10 1

5. koeken koeken Public

   A Linear Discriminant Analysis Effect Size (LEfSe) wrapper.

   Python 26 7

6. btools btools Public

   A set of R functions that help faciliate a lot of tedious processing

   R 18 6