St. Jude Children's Research Hospital (@stjude)
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Top repositories

1

learngenomics.dev

A guided, intuitive introduction to genomics for software engineers. Curated by the community.
JavaScript
344
star
2

ROSE

ROSE: RANK ORDERING OF SUPER-ENHANCERS
Python
36
star
3

CICERO

CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.
Perl
35
star
4

ChIPseqSpikeInFree

A Spike-in Free ChIP-Seq Normalization Approach for Detecting Global Changes in Histone Modifications
R
29
star
5

RNAIndel

Somatic indel discovery tool for tumor RNA-Seq data.
Python
21
star
6

fqlib

Library for manipulating Illumina generated FastQ files
Rust
16
star
7

cis-x

Search for activating regulatory variants in the tumor genome
Perl
14
star
8

proteinpaint

Data visualization and analysis framework focused on phenotype-molecular data integration at cohort level.
JavaScript
14
star
9

indelPost

Python library for simple and complex indels.
C
12
star
10

PrimerTK

A toolkit to design standard primers, multiplexed primers, and primers around SV's
Python
11
star
11

punctatools

Detection, colocalization, and quantification of spots / puncta
Jupyter Notebook
8
star
12

Episomizer

Constuct Extrachromosomal Circular DNA using Whole Genome Sequencing Data
Python
7
star
13

DeepBrainIPP

Automated Brain Structures Segmentation Framework
Python
6
star
14

fuzzion2

fuzzy fusion finder
C++
6
star
15

seaseq

Abraham's lab - ChipSeq Pipeline
WDL
6
star
16

XenoCP

A cloud-based tool for mouse read cleansing in xenograft samples
Shell
5
star
17

teltale

Compute telomeric read fractions in a BAM file.
C++
3
star
18

RNApeg

RNA junction finder
Perl
3
star
19

sjcloud-data-transfer-app

Application to securely upload data to and download data from St. Jude Cloud Platform.
JavaScript
2
star
20

TALL-example

R
2
star
21

ChIP-Seq

C
2
star
22

doCNA

Python
2
star
23

WARDEN

Source code for the WARDEN DNAnexus apps
Python
1
star
24

sjcb_python_utils

St Jude Computational Biology Python utility functions
1
star