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  • Galaxy Upgrade Highlights
    Workflows may now run other workflows as a single abstract step in the parent workflow. This allows for reusing or sub-workflows in your analyses. ====Workflow run form replaced====
    3 KB (417 words) - 20:34, 18 April 2018
  • Chewiesnake
    ChewieSnake is an end-to-end cgMLST based workflow for analyzing a set of assemblies (or reads) and obtaining an easy-to-inter * ChewieSnake is a snakemake workflow that performs cgMLST allele calling for a set of assembled genomes using [[
    4 KB (457 words) - 15:02, 23 October 2023
  • Vfuparr
    ...a cohesive workflow. Designed to operate seamlessly on SLURM systems, this workflow allows users to easily incorporate any docking software of their choice, en The core workflow involves users supplying a SMILES text file, the receptor of interest, and
    3 KB (392 words) - 20:35, 9 April 2024
  • SLAW
    Scalable LC-MS Analysis Workflow SLAW is a scalable, containerized workflow for untargeted LC-MS processing.
    3 KB (389 words) - 23:49, 21 August 2022
  • Snakemake
    [[Category:Software]][[Category:Workflow Automation]][[Category:Biology]] ...rver, cluster, grid and cloud environments, without the need to modify the workflow definition. Finally, Snakemake workflows can entail a description of requir
    3 KB (385 words) - 18:51, 15 August 2022
  • Ont tutorial cas9
    ...evaluates the performance of a Cas9 based target enrichment strategy. This workflow is suitable for Oxford Nanopore fastq sequence collections and requires a r
    2 KB (289 words) - 18:38, 2 June 2022
  • CWLtool
    [[Category:Software]][[Category:Workflow Automation]][[Category:Scheduler Apps]] |{{#vardefine:url|https://github.com/common-workflow-language/cwltool}}
    3 KB (326 words) - 18:29, 11 November 2022
  • Nimare
    ...ch workflow should generate a boilerplate paragraph with details about the workflow and citations that can be used in a manuscript.'''
    3 KB (343 words) - 15:27, 15 August 2022
  • Singularity
    [[Category:Software]][[Category:Workflow Automation]] ...pts|batch jobs]]. In essence it would allow you to develop your analytical workflow on your local machine and bring it as is - ''Bring Your Own Environment'' -
    3 KB (410 words) - 21:30, 6 February 2023
  • Pbtk
    [[Category:Software]][[Category:Biology]][[Category:Workflow Automation]]
    2 KB (227 words) - 13:56, 7 April 2023
  • Pbsmrtpipe
    Workflow Engine for working with PacBio data.
    2 KB (239 words) - 18:05, 15 August 2022
  • Modules Basic Usage
    ...you are using will not change ''unexpectedly'' and potentially break your workflow.<br> You will need to separate your workflow so that you you complete all of the steps for "somemodule", then do a "modu
    5 KB (745 words) - 16:07, 13 February 2023
  • PacBio
    [[Category:Software]][[Category:biology]][[Category:NGS]][[Category:Workflow Automation]]
    2 KB (250 words) - 20:10, 24 August 2022
  • Merge peaks
    [[Category:Software]][[Category:Workflow Automation]]
    2 KB (254 words) - 18:51, 15 August 2022
  • BIRDS
    [[Category:Software]][[Category:Imaging]][[Category:Workflow Automation]][[Category:Utility]]
    2 KB (263 words) - 13:01, 15 August 2022
  • Miniwdl
    Workflow Description Language developer tools & local runner, including including mi
    2 KB (283 words) - 18:55, 1 December 2023
  • FMRIPrep
    ...sy-to-use pipeline for preprocessing of diverse fMRI data. The transparent workflow dispenses of manual intervention, thereby ensuring the reproducibility of t
    2 KB (288 words) - 16:47, 17 October 2023
  • Cactus
    ...cactus-prepare" has proven to be the most successful way to run the Cactus workflow on HiPerGator.
    3 KB (298 words) - 21:30, 18 March 2024
  • IsoSeq3
    ...those tools power the IsoSeq GUI-based analysis application. A composable workflow of existing tools and algorithms, combined with a new clustering technique,
    3 KB (295 words) - 20:10, 24 August 2022
  • V-pipe
    V-pipe is a workflow designed for analysis of next generation sequencing (NGS) data from viral p
    3 KB (296 words) - 17:20, 22 August 2022
  • DVGfinder
    ...the most used DVGs search algorithms, ViReMa-a and DI-tector, in a unique workflow, making the analysis of a sample easier and more intuitive. Also, DVGfinder
    3 KB (319 words) - 13:59, 31 July 2023
  • Mitohifi
    MitoHiFi is a python workflow that assembles mitogenomes from Pacbio HiFi reads.
    3 KB (312 words) - 17:01, 21 July 2022
  • PBJelly
    to produce upgraded draft genomes. Each step in PBJelly's workflow can be run
    3 KB (309 words) - 17:07, 21 August 2022
  • Pyrpipe
    ...ced as "pyre-pipe") is a python package to easily develop RNA-Seq analyses workflow by integrating popular RNA-Seq analysis programs in an object oriented mann
    3 KB (311 words) - 15:22, 16 March 2020
  • SSH Multiplexing
    If you use a Linux or MacOS computer and your workflow involves making
    2 KB (342 words) - 13:40, 26 June 2023
  • Geomxngspipeline
    ...S Pipeline, developed by NanoString, is an essential part of the GeoMx NGS workflow. The Pipeline processes RNA-sequencing files (FASTQ files) from Illumina se
    3 KB (332 words) - 17:51, 29 January 2024
  • Parallel
    [[Category:Software]][[Category:Shell]][[Category:Workflow Automation]]
    3 KB (334 words) - 16:46, 21 August 2022
  • Ansible
    [[Category:Software]][[Category:Workflow Automation]]
    3 KB (348 words) - 14:17, 12 August 2022
  • CANVAS
    [https://doi.org/10.1093/bioinformatics/btx618 The Canvas Small Pedigree Workflow was published in the journal OUP Bioinformatics: Canvas SPW: calling de nov
    3 KB (342 words) - 22:23, 26 August 2020
  • Nf-core
    [[Category:Software]][[Category:Biology]][[Category:Workflow Automation]]
    3 KB (332 words) - 18:51, 15 August 2022
  • Nextflow
    [[Category:Software]][[Category:Biology]][[Category:Workflow Automation]]
    3 KB (336 words) - 16:24, 19 August 2022
  • Nipype
    within a single workflow. Nipype provides an environment that encourages
    3 KB (348 words) - 20:07, 12 August 2022
  • Biolite
    ...archives analysis results that can be accessed across multiple stages of a workflow, or from different workflows.
    3 KB (362 words) - 12:54, 15 August 2022
  • Musket
    ...ectrum approach and introduces three correction techniques in a multistage workflow. Our performance evaluation results, in terms of correction quality and de
    3 KB (351 words) - 13:44, 19 August 2022
  • STAR-CCM+
    ...ineering process, STAR-CCM+ helps you to entirely automate your simulation workflow and perform iterative design studies with minimal user interaction.
    3 KB (363 words) - 16:01, 22 August 2022
  • FastANI
    ...te and draft genome assemblies. Its underlying procedure follows a similar workflow as described by Goris et al. 2007. However, it avoids expensive sequence al
    3 KB (380 words) - 21:21, 6 December 2019
  • HaMStR
    ...//www.deep-phylogeny.org/hamstr/images/hamstr.png here] for details on the workflow.
    3 KB (420 words) - 20:09, 12 August 2022
  • MOSAIK
    At this time, the workflow consists of supplying sequences in FASTA, FASTQ, Illumina Bustard & Gerald,
    3 KB (414 words) - 11:59, 19 August 2022
  • Stumpy
    [[Category:Software]][[Category:Workflow Automation]]
    3 KB (430 words) - 15:16, 13 April 2023
  • MANTA
    ...le SVs, medium-sized indels and large insertions within a single efficient workflow. The method is designed for rapid analysis on standard compute hardware: NA
    3 KB (432 words) - 19:27, 10 June 2022
  • HiC-Pro
    ...or on a computational cluster. HiC-Pro is sequential and each step of the workflow can be run independantly.
    3 KB (432 words) - 18:17, 15 August 2022
  • Persistent Terminal Sessions
    =Workflow=
    4 KB (719 words) - 13:36, 2 January 2023
  • Apptainer
    [[Category:Software]][[Category:Workflow Automation]]
    4 KB (609 words) - 16:30, 12 February 2024
  • Get Help
    ...works, ran into a problem, have a question, or would like to improve your workflow here are the steps you can take. Here's the order of actions we recommend t
    5 KB (801 words) - 13:21, 26 March 2024
  • Globus
    ...eed to initiate Globus transfers from the command line e.g. as a part of a workflow you may want to use the [https://docs.globus.org/cli/ Globus Command-Line I
    11 KB (1,849 words) - 14:14, 31 January 2024
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