Workflows
What is a Workflow?Filters
COVID-19: variation analysis on ARTIC PE data
The workflow for Illumina-sequenced ampliconic data builds on the RNASeq workflow for paired-end data using the same steps for mapping and variant calling, but adds extra logic for trimming amplicon primer sequences off reads with the ivar package. In addition, this workflow uses ivar also to identify amplicons affected by primer-binding site mutations and, if possible, excludes reads derived from such ...
Assembly of bacterial paired-end short read data with generation of quality metrics and reports
Type: Galaxy
Creators: Abromics , Pierre Marin, Clea Siguret, abromics-consortium
Submitter: WorkflowHub Bot
Short paired-end read analysis to provide quality analysis, read cleaning and taxonomy assignation
Type: Galaxy
Creators: ABRomics , Pierre Marin, Clea Siguret, abromics-consortium
Submitter: WorkflowHub Bot
KNIME workflow describing the analysis of mass spectrometry dataset related to the publication "Proximity interactomics identifies RAI14, EPHA2 and PHACTR4 as essential components of Wnt/planar cell polarity pathway in vertebrates". Workflow was built using the KNIME software container environment, version 4.7.7a, which can be created using "docker pull cfprot/knime:4.7.7a" command in Docker. The input data for the KNIME workflow (the report.tsv from DIA-NN) can be found on PRIDE repository under ...
Stratum corneum nanotexture feature detection using deep learning and spatial analysis: a non-invasive tool for skin barrier assessment
This repository presents an objective, quantifiable method for assessing atopic dermatitis (AD) severity. The program integrates deep learning object detection with spatial analysis algorithms to accurately calculate the density of circular nano-size objects (CNOs), termed the Effective Corneocyte Topographical Index (ECTI). The ECTI demonstrates remarkable ...
EuCanImage FHIR ETL Implementation
This repository contains the ETL implementation for EuCanImage, encouraging semantic interoperability of the clinical data obtained in the studies by transforming it into a machine-readable format following FHIR standards. This parser uses FHIR Resources in order to create the dictionaries following a FHIR compliant structure.
- Code Language is written in Python 3.11. ...
EuCanImage FHIR ETL Implementation
This repository contains the ETL implementation for EuCanImage, encouraging semantic interoperability of the clinical data obtained in the studies by transforming it into a machine-readable format following FHIR standards. This parser uses FHIR Resources in order to create the dictionaries following a FHIR compliant structure.
- Code Language is written in Python 3.11. ...
Type: Python
Creators: Aldar Cabrelles, Based on FHIR Resources made by NazrulWorld on GitHub (https://github.com/nazrulworld/)
Submitter: Aldar Cabrelles
EuCanImage FHIR ETL Implementation
This repository contains the ETL implementation for EuCanImage, encouraging semantic interoperability of the clinical data obtained in the studies by transforming it into a machine-readable format following FHIR standards. This parser uses FHIR Resources in order to create the dictionaries following a FHIR compliant structure.
- Code Language is written in Python 3.11. ...
Type: Python
Creators: Aldar Cabrelles, Based on FHIR Resources made by NazrulWorld on GitHub (https://github.com/nazrulworld/)
Submitter: Aldar Cabrelles
EuCanImage FHIR ETL Implementation
This repository contains the ETL implementation for EuCanImage, encouraging semantic interoperability of the clinical data obtained in the studies by transforming it into a machine-readable format following FHIR standards. This parser uses FHIR Resources in order to create the dictionaries following a FHIR compliant structure.
- Code Language is written in Python 3.11. ...
Type: Python
Creators: Aldar Cabrelles, Based on FHIR Resources made by NazrulWorld on GitHub (https://github.com/nazrulworld/)
Submitter: Aldar Cabrelles
EuCanImage FHIR ETL Implementation
This repository contains the ETL implementation for EuCanImage, encouraging semantic interoperability of the clinical data obtained in the studies by transforming it into a machine-readable format following FHIR standards. This parser uses FHIR Resources in order to create the dictionaries following a FHIR compliant structure.
- Code Language is written in Python 3.11. ...
Type: Python
Creators: Aldar Cabrelles, https://github.com/EGA-archive/EuCanImage-FHIR
Submitter: Aldar Cabrelles