Repository revision
10:7d10b55965c9

Repository 'neat_genreads'
hg clone https://toolshed.g2.bx.psu.edu/repos/thondeboer/neat_genreads

genMutModel tool metadata
Miscellaneous
genMutModel
generates a mutation model based on provided mutations. Creates model file for use in NEAT-genReads
genMutModel
toolshed.g2.bx.psu.edu/repos/thondeboer/neat_genreads/genMutModel/1.0.0
1.0.0
None
True
Version lineage of this tool (guids ordered most recent to oldest)
toolshed.g2.bx.psu.edu/repos/thondeboer/neat_genreads/genMutModel/1.0.0 (this tool)
genMutModel
Requirements (dependencies defined in the <requirements> tag set)
name version type
numpy not provided package
matplotlib not provided package
Functional tests
name inputs outputs required files
Test-1 in_type|reference: chrMT.fa
in_type|input_type: history
mutation_file: chrMT-PE-VCF-BAM.vcf
attributes: name
chrMT-PE-VCF-BAM.vcf
chrMT.fa
name
Test-2 misc|include_file: chrMT-Targets.bed
in_type|reference: chrMT.fa
in_type|input_type: history
mutation_file: chrMT-PE-VCF-BAM.vcf
attributes: name
chrMT-PE-VCF-BAM.vcf
chrMT.fa
chrMT-Targets.bed
name
Test-3 in_type|reference: chrMT.fa
in_type|input_type: history
misc|exclude_file: chrMT-Targets.bed
mutation_file: chrMT-PE-VCF-BAM.vcf
attributes: name
chrMT-PE-VCF-BAM.vcf
chrMT.fa
chrMT-Targets.bed
name
Test-4 mutation_file: chrMT-PE-VCF-BAM.vcf
in_type|input_type: history
misc|no_whitelist: True
misc|skip_common: True
in_type|reference: chrMT.fa
misc|save_trinuc: True
attributes: name
attributes: name
chrMT-PE-VCF-BAM.vcf
chrMT.fa
name
Test-5 in_type|reference: hg19chrmt
in_type|input_type: built-in
mutation_file: chrMT-PE-VCF-BAM.vcf
attributes: name
chrMT-PE-VCF-BAM.vcf
name