Genome-assessment-post-assembly
v1.0.0 (earliest)

v2.0.4 (latest)

v2.0.2

v1.1.0

v1.0.0 (earliest)

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Run on usegalaxy.eu

Workflow Type: Galaxy

Stable

Genome assessment post assembly

General usage recommendations

Please see the Genome assessment post assembly guide.

See change log

Attributions

The workflow & the doc_guidelines template used are supported by the Australian BioCommons via Bioplatforms Australia funding, 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 enabled by the National Collaborative Research Infrastructure Strategy (NCRIS).

SEEK ID: https://workflowhub.eu/workflows/403?version=1

DOI: 10.48546/workflowhub.workflow.403.1

Inputs

ID	Name	Description	Type
FASTA contigs - Primary Assembly	FASTA contigs - Primary Assembly	n/a	File

Steps

ID	Name	Description
1	Fasta Statistics	toolshed.g2.bx.psu.edu/repos/iuc/fasta_stats/fasta-stats/2.0
2	Quast	toolshed.g2.bx.psu.edu/repos/iuc/quast/quast/5.0.2+galaxy1
3	Meryl	toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy3
4	Busco	toolshed.g2.bx.psu.edu/repos/iuc/busco/busco/5.2.2+galaxy0
5	Merqury	toolshed.g2.bx.psu.edu/repos/iuc/merqury/merqury/1.3

Outputs

ID	Name	Description	Type
Fasta Statistics on input dataset(s): summary stats	Fasta Statistics on input dataset(s): summary stats	n/a	File
Quast on input dataset(s): PDF report	Quast on input dataset(s): PDF report	n/a	File
Quast on input dataset(s): Log	Quast on input dataset(s): Log	n/a	File
Quast on input dataset(s): tabular report	Quast on input dataset(s): tabular report	n/a	File
Quast on input dataset(s): HTML report	Quast on input dataset(s): HTML report	n/a	File
Meryl on input dataset(s): read-db.meryldb	Meryl on input dataset(s): read-db.meryldb	n/a	File
Busco on input dataset(s): full table	Busco on input dataset(s): full table	n/a	File
Merqury on input dataset(s): size files	Merqury on input dataset(s): size files	n/a	File
Merqury on input dataset(s): stats	Merqury on input dataset(s): stats	n/a	File
Merqury on input dataset(s): bed	Merqury on input dataset(s): bed	n/a	File
Merqury on input dataset(s): wig	Merqury on input dataset(s): wig	n/a	File
Merqury on input dataset(s): qv	Merqury on input dataset(s): qv	n/a	File
Merqury on input dataset(s): png	Merqury on input dataset(s): png	n/a	File