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 almost 2 years ago -
BAM to FASTQ + QC v1.0
- Added almost 2 years ago -
Purge duplicates from hifiasm assembly v1.0
- Added almost 2 years ago -
PacBio HiFi genome assembly using hifiasm v2.1
- Added almost 2 years ago -
Fastq-to-bam @ NCI-Gadi
- Added over 1 year ago -
RNASeq-DE @ NCI-Gadi
- Added over 1 year ago -
Partial ref-guided workflow - gstacks and pops
- Added over 1 year ago -
Partial ref-guided workflow - bwa mem only
- Added over 1 year ago -
Partial de novo workflow: c-s-g-pops only
- Added over 1 year ago -
Partial de novo workflow: ustacks only
- Added over 1 year ago -
Stacks RAD-seq de novo workflow
- Added over 1 year ago -
Stacks RAD-seq reference-guided workflow
- Added over 1 year ago -
QC of RADseq reads
- Added over 1 year ago -
GermlineShortV_biovalidation
- Added over 1 year ago -
Shotgun-Metagenomics-Analysis
- Added over 1 year ago -
Janis Germline Variant-Calling Workflow (GATK)
- Added over 1 year ago -
Combined workflows for large genome assembly
- Added over 1 year ago -
16S_biodiversity_for_nonoverlap_paired_end
- Added over 1 year ago -
16S_biodiversity_for_overlap_paired_end
- Added over 1 year ago -
Assess genome quality
- Added over 1 year ago -
Racon polish with long reads, x4
- Added over 1 year ago -
Assembly with Flye
- Added over 1 year ago -
Trim and filter reads - fastp
- Added over 1 year ago -
kmer counting - meryl
- Added over 1 year ago -
Data QC
- Added over 1 year ago -
Racon polish with Illumina reads, x2
- Added over 1 year ago -
Assembly polishing
- Added over 1 year ago -
Germline-ShortV @ NCI-Gadi
- Added over 1 year ago -
Somatic-ShortV @ NCI-Gadi
- Added over 1 year ago -
Flashlite-Supernova
- Added over 1 year ago -
Flashlite-Trinity
- Added over 1 year ago -
Flashlite-Juicer
- Added over 1 year ago -
Bootstrapping-for-BQSR @ NCI-Gadi
- Added over 1 year ago -
Trinity @ NCI-Gadi
- Added over 1 year ago -
microPIPE: a pipeline for high-quality bacterial genome construction using ONT and Illumina sequencing
- Added over 1 year ago -
GATK4 Fastq to joint-called cohort VCF with Cromwell on SLURM
- Added over 1 year ago -
GATK4 Fastq to joint-called cohort VCF with Cromwell on local cluster (no job scheduler)
- Added over 1 year ago -
16S_biodiversity_BIOM
- Added over 1 year ago -
Trinity RNA Assembly
- Added over 1 year ago
Creators
Submitter
Views: 897
Created: 1st Dec 2022 at 01:26
Last updated: 14th Feb 2023 at 23:14
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