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Nagarajan Lab

Git repository for Niranjan Nagarajan's Group

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  1. lofreq lofreq Public

    LoFreq Star: Sensitive variant calling from sequencing data

    C 112 36

  2. OPERA-MS OPERA-MS Public

    OPERA-MS - Hybrid Metagenomic Assembler

    C++ 102 16

  3. CaDRReS CaDRReS Public

    Cancer Drug Response prediction using a Recommender System

    Python 43 15

  4. CaDRReS-Sc CaDRReS-Sc Public

    CaDRReS-Sc is a framework for analyzing drug response heterogeneity based on single-cell RNA-seq data

    Jupyter Notebook 19 4

  5. INC-Seq INC-Seq Public

    INC-Seq: Accurate single molecule reads using nanopore sequencing

    Python 16 4

  6. GERMS_16S_pipeline GERMS_16S_pipeline Public

    Pipeline for Illumina shotgun sequencing of 16S rRNA amplicon sequences

    Python 14 7

Repositories

Showing 10 of 47 repositories
  • csb5.github.io Public

    github pages for csb5

    CSB5/csb5.github.io's past year of commit activity
    SCSS 1 8 0 0 Updated Sep 9, 2026
  • SPMP_Phages Public

    Scripts associated with the manuscript "GuFi phages represent the most prevalent viral family-level clusters in the human gut microbiome"

    CSB5/SPMP_Phages's past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Sep 4, 2026
  • helios_microbiome_obesity Public

    This repository contains the analysis code for a shotgun-metagenomics study of the gut microbiome and its association with obesity and adiposity in the multi-ethnic Singaporean HELIOS cohort.

    CSB5/helios_microbiome_obesity's past year of commit activity
    0 0 0 0 Updated Aug 3, 2026
  • XNA_Basecaller Public

    NCB Sequencing. Code for paper: "Direct high-throughput deconvolution of non-canonical bases via nanopore sequencing and bootstrapped learning"

    CSB5/XNA_Basecaller's past year of commit activity
    Python 3 MIT 0 0 0 Updated May 12, 2026
  • lofreq Public

    LoFreq Star: Sensitive variant calling from sequencing data

    CSB5/lofreq's past year of commit activity
    C 112 36 80 0 Updated Oct 16, 2025
  • skin_metatranscriptome Public
    CSB5/skin_metatranscriptome's past year of commit activity
    R 0 MIT 1 0 0 Updated Jul 16, 2025
  • ASMP_Dermotype Public

    Scripts to generate figures for the manuscript titled "Large-scale skin metagenomics reveals extensive prevalence, coordination, and functional adaptation of skin microbiome dermotypes across body sites."

    CSB5/ASMP_Dermotype's past year of commit activity
    Jupyter Notebook 0 MIT 0 0 0 Updated Jun 23, 2025
  • FFPE_kitome Public

    Metagenomic sequencing conducted on blank paraffin blocks or extraction controls.

    CSB5/FFPE_kitome's past year of commit activity
    0 MIT 0 0 0 Updated May 4, 2025
  • SG90 Public
    CSB5/SG90's past year of commit activity
    HTML 5 1 0 0 Updated Aug 14, 2024
  • Recovery_Determinants_Study Public

    Data and scripts of Antibiotic Recovery Study

    CSB5/Recovery_Determinants_Study's past year of commit activity
    R 5 MIT 4 0 0 Updated Jul 15, 2024
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