This ARDC and BioCommons sponsored project delivers a key component of BioCommon’s vision for an ecosystem of platforms providing researchers with sophisticated data analysis and digital asset stewardship capabilities. The Bring Your Own Data (BYOD) Platform (https://www.biocommons.org.au/byod-expansion) has enabled highly accessible, highly available, highly scalable analysis and data sharing capabilities for the benefit of life science researchers nationally.
This WorkflowHub collection comprises workflow outputs from core workflow activities of the BYOD project.
Have you used any of the workflows in this collection?
- Please cite the workflows appropriately: according to guidelines provided by the workflow creators.
- Please acknowledge the BYOD project as follows: This work is supported by the Australian BioCommons via funding from Bioplatforms Australia, the Australian Research Data Commons (https://doi.org/10.47486/PL105) and the Queensland Government RICF programme. Bioplatforms Australia and the Australian Research Data Commons are funded by the National Collaborative Research Infrastructure Strategy (NCRIS).
SEEK ID: https://workflowhub.eu/collections/6
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Genome-assessment-post-assembly
- Added over 1 year ago -
BAM to FASTQ + QC v1.0
- Added over 1 year ago -
Purge duplicates from hifiasm assembly v1.0
- Added over 1 year ago -
PacBio HiFi genome assembly using hifiasm v2.1
- Added over 1 year ago -
Fastq-to-bam @ NCI-Gadi
- Added about 1 year ago -
RNASeq-DE @ NCI-Gadi
- Added about 1 year ago -
Partial ref-guided workflow - gstacks and pops
- Added about 1 year ago -
Partial ref-guided workflow - bwa mem only
- Added about 1 year ago -
Partial de novo workflow: c-s-g-pops only
- Added about 1 year ago -
Partial de novo workflow: ustacks only
- Added about 1 year ago -
Stacks RAD-seq de novo workflow
- Added about 1 year ago -
Stacks RAD-seq reference-guided workflow
- Added about 1 year ago -
QC of RADseq reads
- Added about 1 year ago -
GermlineShortV_biovalidation
- Added about 1 year ago -
Shotgun-Metagenomics-Analysis
- Added about 1 year ago -
Janis Germline Variant-Calling Workflow (GATK)
- Added about 1 year ago -
Combined workflows for large genome assembly
- Added about 1 year ago -
16S_biodiversity_for_nonoverlap_paired_end
- Added about 1 year ago -
16S_biodiversity_for_overlap_paired_end
- Added about 1 year ago -
Assess genome quality
- Added about 1 year ago -
Racon polish with long reads, x4
- Added about 1 year ago -
Assembly with Flye
- Added about 1 year ago -
Trim and filter reads - fastp
- Added about 1 year ago -
kmer counting - meryl
- Added about 1 year ago -
Data QC
- Added about 1 year ago -
Racon polish with Illumina reads, x2
- Added about 1 year ago -
Assembly polishing
- Added about 1 year ago -
Germline-ShortV @ NCI-Gadi
- Added about 1 year ago -
Somatic-ShortV @ NCI-Gadi
- Added about 1 year ago -
Flashlite-Supernova
- Added about 1 year ago -
Flashlite-Trinity
- Added about 1 year ago -
Flashlite-Juicer
- Added about 1 year ago -
Bootstrapping-for-BQSR @ NCI-Gadi
- Added about 1 year ago -
Trinity @ NCI-Gadi
- Added about 1 year ago -
microPIPE: a pipeline for high-quality bacterial genome construction using ONT and Illumina sequencing
- Added about 1 year ago -
GATK4 Fastq to joint-called cohort VCF with Cromwell on SLURM
- Added about 1 year ago -
GATK4 Fastq to joint-called cohort VCF with Cromwell on local cluster (no job scheduler)
- Added about 1 year ago -
16S_biodiversity_BIOM
- Added about 1 year ago -
Trinity RNA Assembly
- Added about 1 year ago
Creators
Submitter
Views: 536
Created: 1st Dec 2022 at 01:26
Last updated: 14th Feb 2023 at 23:14
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