Repositories list

• chipdip-pipeline

  Public
  Pipeline to process sequencing reads from a ChIP-DIP experiment

  snakemakechip-seq

  snakemakechip-seq

  Python

  •

  MIT License

  •44 forks•55 stars•66 issues•00 pull requests•Updated Jun 30, 2026Jun 30, 2026

• bases2fastq

  Public
  Environment and wrapper scripts for bases2fastq

  Shell

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 10, 2026Mar 10, 2026

• swift-seq

  Public
  Jupyter Notebook

  •00 forks•11 star•00 issues•00 pull requests•Updated Feb 24, 2026Feb 24, 2026

• bead-barcoding-pipeline

  Public
  Python

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 13, 2026Feb 13, 2026

• CLAPAnalysis

  Public
  Pipeline for CLAP data analysis

  Python

  •33 forks•00 stars•00 issues•00 pull requests•Updated Oct 17, 2024Oct 17, 2024

• speckle

  Public
  scripts and data from Bhat et al. speckle paper

  Jupyter Notebook

  •11 fork•00 stars•00 issues•00 pull requests•Updated Nov 20, 2023Nov 20, 2023

• guttmanlab-core

  Public
  Java

  •33 forks•00 stars•1313 issues•00 pull requests•Updated May 6, 2023May 6, 2023

• sprite2.0-pipeline

  Public
  Python

  •33 forks•1010 stars•22 issues•00 pull requests•Updated Aug 28, 2022Aug 28, 2022

• sprite-pipeline

  Public
  A self-contained repository of all code needed for SPRITE analysis

  C

  •

  MIT License

  •44 forks•2121 stars•22 issues•00 pull requests•Updated Jul 28, 2021Jul 28, 2021

• array-tools

  Public
  Programs used for array design

  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 22, 2017Sep 22, 2017

• alignment-tools

  Public
  Non-project-specific tools for processing alignment data.

  Java

  •

  MIT License

  •11 fork•00 stars•00 issues•00 pull requests•Updated Aug 7, 2017Aug 7, 2017

• barcoding-post

  Public
  Programs for processing data after barcode-identification

  Python

  •11 fork•11 star•00 issues•00 pull requests•Updated Aug 4, 2017Aug 4, 2017

• bio

  Public
  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Aug 3, 2017Aug 3, 2017

• variant

  Public
  Code for variant calling.

  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jul 12, 2017Jul 12, 2017

• scripts

  Public
  Common location for general scripts

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 9, 2017Mar 9, 2017

• malat1

  Public
  Repository for code associated with Malat1 projects

  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Mar 7, 2017Mar 7, 2017

• guttmanlab-sequential-barcode

  Public
  Packages to manage and analyze data generated by the Guttman lab's sequential barcoding method.

  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 23, 2016Sep 23, 2016

• guttmanlab-capture

  Public
  Tools to plan hybrid capture experiments, arrays

  Java

  •22 forks•00 stars•00 issues•00 pull requests•Updated Aug 31, 2016Aug 31, 2016

• galaxy-tools

  Public
  Custom

  00 forks•00 stars•00 issues•00 pull requests•Updated Apr 15, 2016Apr 15, 2016

• gbtools

  Public
  Java

  •11 fork•00 stars•00 issues•00 pull requests•Updated Apr 13, 2016Apr 13, 2016

• guttmanlab-editing

  Public
  Packages to develop experiments and analyze data for genome editing methods

  Java

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 13, 2016Apr 13, 2016

• htsjdk

  Public
  A Java API for high-throughput sequencing data (HTS) formats.

  Java

  •241241 forks•00 stars•00 issues•00 pull requests•Updated Mar 14, 2016Mar 14, 2016

• picard

  Public
  A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

  Java

  •383383 forks•00 stars•00 issues•00 pull requests•Updated Mar 2, 2016Mar 2, 2016