Repositories list

• CZI_MI_mouseZebrafish

  Public
  Scripts for the analysis of scRNA-seq data of mouse and zebrafish

  HTML

  •

  MIT License

  •0•0•3•0•Updated Nov 6, 2024Nov 6, 2024

• Guo2024

  Public
  Makefile

  •0•0•0•0•Updated Oct 22, 2024Oct 22, 2024

• piskounova_ribo

  Public
  Shell

  •0•0•0•0•Updated Sep 4, 2024Sep 4, 2024

• redin_smarca4

  Public
  0•0•0•0•Updated Jul 1, 2024Jul 1, 2024

• Espinosa-Carrasco2024

  Public
  Makefile

  •0•0•0•0•Updated Apr 30, 2024Apr 30, 2024

• Rudloff2022

  Public
  HTML

  •0•3•0•0•Updated Apr 25, 2023Apr 25, 2023

• CopertinoHODHbt

  Public
  HTML

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  MIT License

  •0•0•0•0•Updated Mar 5, 2023Mar 5, 2023

• RubioNavarro_Pancreas

  Public
  Scripts related to single-cell and bulk RNA-seq data of mouse pancreata as presented by Rubio-Navarro et al.

  HTML

  •

  MIT License

  •0•1•0•0•Updated Jan 14, 2023Jan 14, 2023

• Cao_Epicardium

  Public
  Scripts related to scRNA-seq data analysis

  MIT License

  •0•1•1•0•Updated Jan 6, 2023Jan 6, 2023

• Vartanian2023

  Public
  Makefile

  •0•0•0•0•Updated Jan 6, 2023Jan 6, 2023

• CovaxxHIV

  Public
  Scripts and read counts for bulk RNA-seq

  HTML

  •0•0•0•0•Updated Sep 5, 2022Sep 5, 2022

• Zhong2022

  Public
  0•0•0•0•Updated Apr 26, 2022Apr 26, 2022

• Battat_ileocolectomy

  Public
  Academic Free License v3.0

  •0•0•0•0•Updated Mar 23, 2022Mar 23, 2022

• Chandran2021

  Public
  Code and access to data related to the SIFT-seq publication by Chandran et al., Nature Medicine (2022)

  bioinformaticsrscrna-seq+ 1tcr-seq

  HTML

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  MIT License

  •1•0•0•0•Updated Mar 3, 2022Mar 3, 2022

• KlebanoffMR4050

  Public
  SIFT-seq data for patient MR4050

  R

  •0•0•0•0•Updated Mar 3, 2022Mar 3, 2022

• Klebanoff0606T1

  Public
  SIFT-seq data for patient 0606T1

  R

  •0•0•0•0•Updated Mar 3, 2022Mar 3, 2022

• Klebanoff21LT2

  Public
  SIFT-seq data for patient 21LT2

  R

  •1•0•0•0•Updated Mar 3, 2022Mar 3, 2022

• GeartySchietinger

  Public
  Scripts related to bulkRNA-seq as well as single-cell CITE-seq and VDJ-seq data of Gearty et al. (2021)

  tcr-repertoirecite-seqrna-seq+ 1single-cell

  HTML

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  MIT License

  •4•5•0•0•Updated Feb 15, 2022Feb 15, 2022

• this-and-that

  Public
  Collection of notes and scripts that may come in handy

  MIT License

  •0•0•0•0•Updated Jan 18, 2022Jan 18, 2022

• Notaras_MolPsy

  Public
  Code for the analysis of brain-organoid-derived single-cell RNA-seq data as published in Notaras et al., 2021

  bioinformaticsrna-seqsingle-cell

  HTML

  •

  MIT License

  •0•2•1•0•Updated Nov 25, 2021Nov 25, 2021

• Shakiba2020

  Public
  Code for the analyses of bulk RNA-seq and ATAC-seq presented in Shakiba et al., J Exp Med (2021)

  Makefile

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  MIT License

  •1•0•0•0•Updated Oct 27, 2021Oct 27, 2021

• RenHIV

  Public
  Scripts and data for the bulk RNA-seq analysis of HIV-infected CD4 T cells as published in Ren et al., J Virol (2021)

  HTML

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  MIT License

  •0•0•0•0•Updated Sep 24, 2021Sep 24, 2021

• Scott2019

  Public
  Code and data for the bulk RNA-seq and bulk ATAC-seq data of tumor-infiltrating CD8 T cells (and controls) as published in Scott et al., Nature (2019).

  bioinformaticsatac-seqrna-seq

  Makefile

  •0•0•0•0•Updated Aug 13, 2021Aug 13, 2021

• Hajjar2021_Blood

  Public
  Analyses of amplicon-sequencing of the ANXA2 gene as published in Fassel et al., Blood (2021)

  bioinformaticssequencing

  Makefile

  •0•0•0•0•Updated Aug 13, 2021Aug 13, 2021

• Regnier-Golanov2021

  Public
  TeX

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  MIT License

  •0•0•0•0•Updated Aug 13, 2021Aug 13, 2021

• Barbet2019

  Public
  Code for processing of scRNA-seq and VDJ data for the manuscript of Barbet et al.

  0•0•0•0•Updated Jan 13, 2021Jan 13, 2021