WorkflowsWhat is a Workflow?
This workflow can be used to fit dose-response curves from normalised biochemical assay data (%Inhibition) using the HCS extension. This workflow needs R-Server to run in the back-end. Start R and run the following command: library(Rserve); Rserve(args = "--vanilla") IC50 values will not be extrapolated outside the tested concentration range For activity classification the following criteria are applied:
- maximum (average % inhibion) >25 % and slope is >0 and IC50 > 5 µM or
- minimum ...
Generates Dose-response curve fits on cell-based toxicity data. Outliers of replicate data-sets can be removed by setting a threshold for standard deviation (here set to 25). Curve fits for compounds showing low response can be removed by setting a threshold for minimum activity (here set to 75% confluence). This workflow needs R-Server to run in the back-end. Start R and run the following command: library(Rserve); Rserve(args = "--vanilla")
BackTrackBB is a program for detection and space-time location of seismic sources based on multi-scale, frequency-selective statistical coherence of the wave field recorded by dense large-scale seismic networks and local antennas. The method is designed to enhance coherence of the signal statistical features across the array of sensors and consists of three steps. They are signal processing, space-time imaging and detection and location.
More information: https://backtrackbb.github.io/
Creators: Natalia Poiata, Claudio Satriano, Javier Conejero
Submitter: Raül Sirvent
Type: Common Workflow Language
Creators: Pjotr Prins, Andrea Guarracino, Peter Amstutz, Thomas Liener, Adam M. Novak, Bonface Munyoki, Tazro Inutano, Michael Heuer, Michael R. Crusoe, Stian Soiland-Reyes
Submitter: Michael R. Crusoe
A workflow for marine Genomic Observatories data analysis
An EOSC-Life project
The workflows developed in the framework of this project are based on
pipeline-v5 of the MGnify resource.
This branch is a child of the
pipeline_5.1branch that contains all CWL descriptions of the MGnify ...
Type: Common Workflow Language
Creators: Haris Zafeiropoulos, Martin Beracochea
Submitter: Haris Zafeiropoulos
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 ...
Creator: Wolfgang Maier
Submitter: WorkflowHub Bot
Creators: Laura Rodriguez-Navas, Adrián Muñoz-Civico, Daniel López-López
Submitter: Laura Rodriguez-Navas
Snakemake workflow: FAIR CRCC - image conversion
A Snakemake workflow for converting whole-slide images (WSI) from the CRC Cohort ...
Creator: Luca Pireddu
Submitter: Luca Pireddu
Creator: Johannes Köster
Submitter: Johannes Köster
Fastq-to-BAM @ NCI-Gadi is a genome alignment workflow that takes raw FASTQ files, aligns them to a reference genome and outputs analysis ready BAM files. This workflow is designed for the National Computational Infrastructure's (NCI) Gadi supercompter, leveraging multiple nodes on NCI Gadi to run all stages of the workflow in parallel, either massively parallel using the scatter-gather approach or parallel by sample. It consists of a number of stages and follows the BROAD Institute's best practice ...
Type: Shell Script
Creators: Cali Willet, Tracy Chew, Georgina Samaha, Rosemarie Sadsad, Andrey Bliznyuk, Ben Menadue, Rika Kobayashi, Matthew Downton, Yue Sun
Submitter: Georgina Samaha