kmer-profiling-hifi-trio-VGP2/main

Create Meryl Database used for the estimation of assembly parameters and quality control with Merqury. Part of the VGP pipeline.

Inputs

ID	Name	Description	Type
K-mer length	#main/K-mer length	n/a	int
Maternal reads	#main/Maternal reads	Collection of Illumina reads for the mother of the Individual sequenced with Pacbio Hifi.	array containing File
Pacbio Hifi reads	#main/Pacbio Hifi reads	n/a	array containing File
Paternal reads	#main/Paternal reads	Collection of Illumina reads for the father of the Individual sequenced with Pacbio Hifi.	array containing File
Ploidy	#main/Ploidy	n/a	int

Steps

ID	Name	Description
5	Meryl	toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
6	Meryl	toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
7	Meryl	toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
8	Meryl	toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
9	GenomeScope	toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0+galaxy2
10	Meryl	toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
11	Meryl	toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
12	Meryl	toolshed.g2.bx.psu.edu/repos/iuc/meryl/meryl/1.3+galaxy6
13	Genomescope on paternal haplotype	toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0+galaxy2
14	Genomescope on maternal haplotype	toolshed.g2.bx.psu.edu/repos/iuc/genomescope/genomescope/2.0+galaxy2

Outputs

Version History

Updated to v0.1.3

Frozen v0.1.3 42946fd

Updated to v0.1.2

Frozen v0.1.2 8ede5c5

Updated to v0.1.1

Frozen v0.1.1 e6b9882

kmer-profiling-hifi-trio-VGP2/main
v0.1.3 (latest)

v0.1.3 (latest)

v0.1.2

v0.1.1 (earliest)

ID	Name	Description	Type
GenomeScope Model Parameters (child)	#main/GenomeScope Model Parameters (child)	n/a	File
GenomeScope linear plot (child)	#main/GenomeScope linear plot (child)	n/a	File
GenomeScope linear plot (maternal)	#main/GenomeScope linear plot (maternal)	n/a	File
GenomeScope linear plot (paternal)	#main/GenomeScope linear plot (paternal)	n/a	File
GenomeScope log plot (child)	#main/GenomeScope log plot (child)	n/a	File
GenomeScope log plot (maternal)	#main/GenomeScope log plot (maternal)	n/a	File
GenomeScope log plot (paternal)	#main/GenomeScope log plot (paternal)	n/a	File
GenomeScope summary (child)	#main/GenomeScope summary (child)	n/a	File
GenomeScope transformed linear plot (child)	#main/GenomeScope transformed linear plot (child)	n/a	File
GenomeScope transformed linear plot (maternal)	#main/GenomeScope transformed linear plot (maternal)	n/a	File
GenomeScope transformed linear plot (paternal)	#main/GenomeScope transformed linear plot (paternal)	n/a	File
GenomeScope transformed log plot (child)	#main/GenomeScope transformed log plot (child)	n/a	File
GenomeScope transformed log plot (maternal)	#main/GenomeScope transformed log plot (maternal)	n/a	File
GenomeScope transformed log plot (paternal)	#main/GenomeScope transformed log plot (paternal)	n/a	File
Meryl database : Child	#main/Meryl database : Child	n/a	File
Meryl database : maternal	#main/Meryl database : maternal	n/a	File
Meryl database : paternal	#main/Meryl database : paternal	n/a	File