Dieterich Lab (@dieterich-lab)
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dieterich-lab

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Top repositories

1

DCC

DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies a series of filters and integrates data across replicate sets to arrive at a precise list of circRNA candidates.
Python
36
star
2

circtools

circtools: a modular, python-based framework for circRNA-related tools that unifies several functionalities in a single, command line driven software.
Python
25
star
3

JACUSA2

New version of JACUSA -> 2.0
Java
22
star
4

single-cell-nanopore

Workflow for Nanopore Sequencing of 10x single cell libraries
C++
19
star
5

AppleDashboard

Dashboard for analysis of Apple Watch data with interactive graphics.
Python
11
star
6

JACUSA

JAVA framework for accurate SNV assessment
HTML
11
star
7

CircTest

CircRNA testing and ploting R package
R
9
star
8

CellPlot

R package for the integrated visualisation of functional enrichment and expression data.
R
8
star
9

Baltica

Baltica: integrated differential junction usage
R
8
star
10

rp-bp

Rp-Bp is a Bayesian approach to predict, at base-pair resolution, ribosome occupancy and translation.
Python
7
star
11

ScNaST

ScNaST (Single-cell Nanopore Spatial Transcriptomics)
Jupyter Notebook
4
star
12

medex

Intuitive Graphical User Interface for Medical Data Exploration
Python
4
star
13

JACUSA2helper

Auxiliary R package for assessment of JACUSA2 results
R
3
star
14

dorina

doRiNa - database of posttranscriptional regulatory elements
Jupyter Notebook
3
star
15

cyntenator

Cyntenator is a software for identification of conserved syntenic blocks between multiple genomes.
C++
3
star
16

magnetiqueCode2022

Source code repository for informatics for life SP1
Jupyter Notebook
3
star
17

ASyH

The Anonymous Synthesizer for Health Data
Python
3
star
18

clinical_deid

De-Identification of Clinical Admission Notes using BiLSTM and Embedded Languages Models (ELMo) as Word Representation
Python
3
star
19

FUCHS

FUCHS - FUll circle CHaracterization from rna-Seq
Python
3
star
20

mAFiA

Python
3
star
21

AnonymizeAndSynthesize

Code used to produce the results presented in the publication "Anonymize or Synthesize? - Privacy-Preserving Methods for Heart Failure Score Analytics"
Python
3
star
22

tribe-workflow

A workflow for TRIBE data based on JACUSA
Perl
2
star
23

QutRNA

Python
2
star
24

slurm-tools

A collection of helper scripts for everyday use of SLURM
Shell
2
star
25

pulseR

R
2
star
26

HiGHmedUCCScores

Scoring functions of the HiGHmed use case Cardiology
R
2
star
27

3PD

Repository of the 3PD tool: Rapid design of optimal primers for chromosome conformation capture assays
Java
2
star
28

bioinfo-scripts

Assorted scripts in Perl, Bash, R and whatsoever directly from a bioinformaticians scripts/ folder
Shell
2
star
29

PETGUI

We present PETGUI: A user-friendly interface for training and testing a language model using Pattern-Exploiting Training (PET).
Python
1
star
30

MiMB_JACUSA2_chapter

JACUSA2 - A framework for the mapping of RNA modifications
TeX
1
star
31

primex

R
1
star
32

bareos-scripts

Python
1
star
33

LINDA

R
1
star
34

rajman_et_al

Supplementary software and custom scripts for Rajman et al.
R
1
star
35

nmdtxdb

Shiny application and code for the database for NMD targets
R
1
star