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Merge pull request galaxyproject#244 from Delphine-L/VGP2-update
Update of VGP WF2 : kmer profiling for Trio Data
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workflows/VGP-assembly-v2/VGP-meryldb-creation-trio/.dockstore.yml
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workflows/VGP-assembly-v2/VGP-meryldb-creation-trio/meryldb-creation-trio-tests.yml
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workflows/VGP-assembly-v2/kmer-profiling-hifi-trio-VGP2/.dockstore.yml
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version: 1.2 | ||
workflows: | ||
- name: main | ||
primaryDescriptorPath: /kmer-profiling-hifi-trio-VGP2.ga | ||
subclass: Galaxy | ||
testParameterFiles: | ||
- /kmer-profiling-hifi-trio-VGP2-tests.yml |
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...ows/VGP-assembly-v2/kmer-profiling-hifi-trio-VGP2/kmer-profiling-hifi-trio-VGP2-tests.yml
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- doc: Test outline for kmer-profiling-hifi-trio-VGP2.ga | ||
job: | ||
Maternal reads: | ||
class: Collection | ||
collection_type: list | ||
elements: | ||
- class: File | ||
identifier: forward | ||
location: https://zenodo.org/record/6603774/files/paternal.fastq?download=1 | ||
filetype: fastqsanger | ||
- class: File | ||
identifier: reverse | ||
location: https://zenodo.org/record/6603774/files/paternal.fastq?download=1 | ||
filetype: fastqsanger | ||
Paternal reads: | ||
class: Collection | ||
collection_type: list | ||
elements: | ||
- class: File | ||
identifier: forward | ||
location: https://zenodo.org/record/6603774/files/maternal.fastq?download=1 | ||
filetype: fastqsanger | ||
- class: File | ||
identifier: reverse | ||
location: https://zenodo.org/record/6603774/files/maternal.fastq?download=1 | ||
filetype: fastqsanger | ||
Pacbio Hifi reads: | ||
class: Collection | ||
collection_type: list | ||
elements: | ||
- class: File | ||
identifier: pacbio_dataset | ||
location: https://zenodo.org/record/6603774/files/child.fastq?download=1 | ||
filetype: fastqsanger | ||
'K-mer length': 9 | ||
Ploidy: 1 | ||
outputs: | ||
GenomeScope linear plot (maternal): | ||
class: File | ||
file: test-data/GenomeScope_Linear_plot_maternal.png | ||
compare: sim_size | ||
delta: 15000 | ||
GenomeScope linear plot (paternal): | ||
class: File | ||
file: test-data/GenomeScope_Linear_plot_paternal.png | ||
compare: sim_size | ||
delta: 15000 | ||
GenomeScope linear plot (child): | ||
class: File | ||
file: test-data/GenomeScope_Linear_plot_child.png | ||
compare: sim_size | ||
delta: 15000 | ||
GenomeScope summary (child): | ||
asserts: | ||
has_text: | ||
text: '39,419 bp' | ||
has_text: | ||
text: '43,763 bp' | ||
'Meryl database : Child': | ||
asserts: | ||
has_size: | ||
value: 205051 | ||
delta: 1000 | ||
'Meryl database : paternal': | ||
asserts: | ||
has_size: | ||
value: 40338 | ||
delta: 1000 | ||
'Meryl database : maternal': | ||
asserts: | ||
has_size: | ||
value: 49534 | ||
delta: 1000 |
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