Repositories list

• app_mavrikaki_brain_aging_spatialtx_human_hbc05086

  Public
  vitessce

  JavaScript

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  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 22, 2026Apr 22, 2026

• knowledgebase

  Public
  recipes that save time

  R

  •3333 forks•147147 stars•1616 issues•11 pull request•Updated Feb 11, 2026Feb 11, 2026

• HBC04292_Hazra_RNA_exomecapture_human

  Public
  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 9, 2025Nov 9, 2025

• Platform

  Public
  place for documentation on how to run pipelines and guidelines for analysis

  HTML

  •

  MIT License

  •22 forks•00 stars•55 issues•11 pull request•Updated Aug 29, 2025Aug 29, 2025

• HBC04855_Schatton_mouse_RNAseq

  Public
  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 14, 2025Aug 14, 2025

• HBC04813_Schatton_mouse_ATACseq_extracode

  Public
  R

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jun 24, 2025Jun 24, 2025

• HBC04813_Schatton_mouse_ATACseq

  Public
  R

  •11 fork•11 star•00 issues•00 pull requests•Updated Jun 24, 2025Jun 24, 2025

• scRNAseq_qc_app

  Public
  R

  •11 fork•00 stars•00 issues•00 pull requests•Updated Feb 13, 2025Feb 13, 2025

• scrna_coexpression_workflow

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Dec 9, 2024Dec 9, 2024

• hbc_scRNA_merck_coexpression_of_genes_pilot_hbc04734

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 9, 2024Dec 9, 2024

• rshiny_template

  Public template
  tempalte for any shiny from HCBC

  CSS

  •

  GNU General Public License v3.0

  •00 forks•11 star•00 issues•00 pull requests•Updated Sep 12, 2024Sep 12, 2024

• bcbioSingleCell

  Public
  R package for bcbio single-cell RNA-seq analysis.

  R

  •

  GNU Affero General Public License v3.0

  •88 forks•3131 stars•00 issues•00 pull requests•Updated Sep 9, 2024Sep 9, 2024

• bcbioRNASeq

  Public
  R package for bcbio RNA-seq analysis.

  R

  •

  GNU Affero General Public License v3.0

  •2121 forks•6464 stars•00 issues•00 pull requests•Updated Sep 9, 2024Sep 9, 2024

• bcbioBase

  Public
  Base functions for bcbio R packages.

  R

  •

  GNU Affero General Public License v3.0

  •33 forks•22 stars•00 issues•00 pull requests•Updated Sep 9, 2024Sep 9, 2024

• tinyatlas

  Public
  A tiny cell atlas for commonly sequenced organisms.

  3939 forks•2929 stars•22 issues•11 pull request•Updated Jul 9, 2024Jul 9, 2024

• hbc.github.io

  Public archive
  Jekyll based website for the Harvard Chan Bioinformatics Core

  SCSS

  •

  MIT License

  •884884 forks•33 stars•00 issues•00 pull requests•Updated Jun 11, 2024Jun 11, 2024

• leafcutter

  Public
  Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae Kyung Im, Jonathan K. P…

  R

  •

  Apache License 2.0

  •121121 forks•00 stars•00 issues•00 pull requests•Updated Jun 1, 2024Jun 1, 2024

• Molecular-convergence-between-Down-syndrome-and-Fragile-X-syndrome-hPSCs

  Public
  Code repository for the paper "Molecular convergence between Down syndrome and Fragile X syndrome identified using human pluripotent stem cell models"

  TeX

  •

  MIT License

  •11 fork•11 star•00 issues•00 pull requests•Updated Aug 8, 2022Aug 8, 2022

• overmoyer2021_RNAseq_analysis_of_inflammatory_breast_cancer_hbc04141

  Public
  HTML

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  MIT License

  •11 fork•11 star•00 issues•00 pull requests•Updated Jun 30, 2022Jun 30, 2022

• hbc_kim_ATACseq_BRG1_hbc04466

  Public
  ATACseq of BRG1

  HTML

  •00 forks•11 star•00 issues•00 pull requests•Updated Jun 3, 2022Jun 3, 2022

• rowe2020_indrop_citeseq_hbc03948

  Public
  Shell

  •22 forks•11 star•00 issues•00 pull requests•Updated Jan 18, 2022Jan 18, 2022

• tutorials

  Public
  This repo contains tutorials for different NGS analysis methods

  R

  •44 forks•1313 stars•11 issue•00 pull requests•Updated Nov 29, 2021Nov 29, 2021

• hbc_timeseries_scRNAseq_lung_cancer_organoids_hbc03856

  Public
  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 18, 2021Nov 18, 2021

• dou_ChIPseq_cytosolic_DNA_in_senescence_hbc04310

  Public
  Chip seq analysis of Cytoplasmic chromatin DNA

  00 forks•00 stars•00 issues•00 pull requests•Updated Oct 27, 2021Oct 27, 2021

• power_calc_simulations

  Public
  sample code for running simulation based power calculations

  00 forks•00 stars•00 issues•00 pull requests•Updated Jun 23, 2021Jun 23, 2021

• metabolomic_vizualization_manuscript

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated May 18, 2021May 18, 2021

• Clark_snRNA_seq_skin_biopsies_hbc04139-

  Public
  snRNA seq from CTCL skin sample OTC frozen

  Shell

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 24, 2021Feb 24, 2021

• john_flanagan_insulin_receptor_chipseq_rnaseq

  Public
  Shell

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jan 28, 2021Jan 28, 2021

• presentations

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Sep 28, 2020Sep 28, 2020

• sequencing_guidelines

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Apr 22, 2020Apr 22, 2020