Nagarajan Lab (@CSB5)
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CSB5

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Top repositories

1

lofreq

LoFreq Star: Sensitive variant calling from sequencing data
C
92
star
2

OPERA-MS

OPERA-MS - Hybrid Metagenomic Assembler
C++
81
star
3

CaDRReS

Cancer Drug Response prediction using a Recommender System
Python
39
star
4

GERMS_16S_pipeline

Pipeline for Illumina shotgun sequencing of 16S rRNA amplicon sequences
Python
14
star
5

INC-Seq

INC-Seq: Accurate single molecule reads using nanopore sequencing
Python
13
star
6

CaDRReS-Sc

CaDRReS-Sc is a framework for analyzing drug response heterogeneity based on single-cell RNA-seq data
Jupyter Notebook
11
star
7

shotgun-metagenomics-pipeline

A pipeline for primary analysis of shotgun metagenomic sequencing data
Python
10
star
8

OncoIMPACT

Cancer-omics Data Integration
Perl
6
star
9

atminter

SVM/regex abstract parser for identification of microbial interactions
Python
6
star
10

TUGDA

TUGDA is a novel multi-task unsupervised domain adaptation method that leverages transfer learning from tasks/domains in a unified framework.
Jupyter Notebook
6
star
11

splash

Scripts to analyze data from the SPLASH protocol for generating in vivo RNA interactome maps
Python
5
star
12

Recovery_Determinants_Study

Data and scripts of Antibiotic Recovery Study
R
4
star
13

driver_evaluation

Perl
4
star
14

driver-benchmarking

Pipeline for mutation benchmarking of various softwares.
Perl
3
star
15

ViPR2

Viral Pipeline Runner Version 2 >>> superseded by ViPR3 https://github.com/gis-rpd/pipelines/tree/master/germs/vipr
Python
3
star
16

vipr

Viral Pipeline Runner: >>> superseded by https://github.com/CSB5/ViPR2
Python
3
star
17

EDDA

Power Your Design
R
2
star
18

decont

Decontaminate FastQ files
Python
2
star
19

misc-scripts

Miscellaneous scripts
Python
2
star
20

GiRaF

Robust, Computational Identification of Influenza Reassortments via Graph Mining
2
star
21

csb5.github.io

github pages for csb5
HTML
1
star
22

TCGA-preprocessing

Perl
1
star
23

MetageNN

MetageNN is a proof of concept neural network used to obtain a memory-efficient taxonomic classifier robust to sequencing errors and missing genomes
Python
1
star
24

SPMP

Singapore Platinum Metagenomes Project
Jupyter Notebook
1
star