dieterich-lab/medex

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Language
Python
License
MIT License
Created almost 5 years ago
Updated about 2 months ago

dieterich-lab/medex

dieterich-lab

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Intuitive Graphical User Interface for Medical Data Exploration

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.

circtools

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

JACUSA2

New version of JACUSA -> 2.0

single-cell-nanopore

Workflow for Nanopore Sequencing of 10x single cell libraries

AppleDashboard

Dashboard for analysis of Apple Watch data with interactive graphics.

JACUSA

JAVA framework for accurate SNV assessment

CircTest

CircRNA testing and ploting R package

CellPlot

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

Baltica

Baltica: integrated differential junction usage

rp-bp

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

ScNaST

ScNaST (Single-cell Nanopore Spatial Transcriptomics)

Jupyter Notebook

JACUSA2helper

Auxiliary R package for assessment of JACUSA2 results

dorina

doRiNa - database of posttranscriptional regulatory elements

Jupyter Notebook

cyntenator

Cyntenator is a software for identification of conserved syntenic blocks between multiple genomes.

magnetiqueCode2022

Source code repository for informatics for life SP1

Jupyter Notebook

ASyH

The Anonymous Synthesizer for Health Data

clinical_deid

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

FUCHS

FUCHS - FUll circle CHaracterization from rna-Seq

mAFiA

AnonymizeAndSynthesize

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

tribe-workflow

A workflow for TRIBE data based on JACUSA

QutRNA

slurm-tools

A collection of helper scripts for everyday use of SLURM

pulseR

HiGHmedUCCScores

Scoring functions of the HiGHmed use case Cardiology

3PD

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

bioinfo-scripts

Assorted scripts in Perl, Bash, R and whatsoever directly from a bioinformaticians scripts/ folder

PETGUI

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

MiMB_JACUSA2_chapter

JACUSA2 - A framework for the mapping of RNA modifications

primex

bareos-scripts

LINDA

rajman_et_al

Supplementary software and custom scripts for Rajman et al.

nmdtxdb

Shiny application and code for the database for NMD targets