k-mer based assembly evaluation.
meta
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
meryl_db
:file
Meryl read database
assembly
FASTA assembly file
assembly_only_kmers_bed
*_only.bed
The positions of the k-mers found only in an assembly for further investigation in .bed
assembly_only_kmers_wig
*_only.wig
The positions of the k-mers found only in an assembly for further investigation in .wig
stats
*.completeness.stats
Assembly statistics file
dist_hist
*.dist_only.hist
Histogram
spectra_cn_fl_png
*.spectra-cn.fl.png
Unstacked copy number spectra filled plot in PNG format
spectra_cn_hist
*.spectra-cn.hist
Copy number spectra histogram
spectra_cn_ln_png
*.spectra-cn.ln.png
Unstacked copy number spectra line plot in PNG format
spectra_cn_st_png
*.spectra-cn.st.png
Stacked copy number spectra line plot in PNG format
spectra_asm_fl_png
*.spectra-asm.fl.png
Unstacked assembly spectra filled plot in PNG format
spectra_asm_hist
*.spectra-asm.hist
Assembly spectra histogram
spectra_asm_ln_png
*.spectra-asm.ln.png
Unstacked assembly spectra line plot in PNG format
spectra_asm_st_png
*.spectra-asm.st.png
Stacked assembly spectra line plot in PNG format
assembly_qv
${prefix}.qv
Assembly consensus quality estimation
*.qv
scaffold_qv
${prefix}.*.qv
Scaffold consensus quality estimation
read_ploidy
*.hist.ploidy
Ploidy estimate from read k-mer database
hapmers_blob_png
*.hapmers.blob.png
Hap-mer blob plot
versions_merqury
${task.process}
:string
The name of the process
merqury
The name of the tool
"1.3"
The expression to obtain the version of the tool
versions
Evaluate genome assemblies with k-mers and more.
