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:file
FASTA assembly file
assembly_only_kmers_bed
*_only.bed:file
The positions of the k-mers found only in an assembly for further investigation in .bed
*_only.bed
assembly_only_kmers_wig
*_only.wig:file
The positions of the k-mers found only in an assembly for further investigation in .wig
*_only.wig
stats
*.completeness.stats:file
Assembly statistics file
*.completeness.stats
dist_hist
*.dist_only.hist:file
Histogram
*.dist_only.hist
spectra_cn_fl_png
*.spectra-cn.fl.png:file
Unstacked copy number spectra filled plot in PNG format
*.spectra-cn.fl.png
spectra_cn_hist
*.spectra-cn.hist:file
Copy number spectra histogram
*.spectra-cn.hist
spectra_cn_ln_png
*.spectra-cn.ln.png:file
Unstacked copy number spectra line plot in PNG format
*.spectra-cn.ln.png
spectra_cn_st_png
*.spectra-cn.st.png:file
Stacked copy number spectra line plot in PNG format
*.spectra-cn.st.png
spectra_asm_fl_png
*.spectra-asm.fl.png:file
Unstacked assembly spectra filled plot in PNG format
*.spectra-asm.fl.png
spectra_asm_hist
*.spectra-asm.hist:file
Assembly spectra histogram
*.spectra-asm.hist
spectra_asm_ln_png
*.spectra-asm.ln.png:file
Unstacked assembly spectra line plot in PNG format
*.spectra-asm.ln.png
spectra_asm_st_png
*.spectra-asm.st.png:file
Stacked assembly spectra line plot in PNG format
*.spectra-asm.st.png
assembly_qv
${prefix}.qv:file
Assembly consensus quality estimation
*.qv
scaffold_qv
${prefix}.*.qv:file
Scaffold consensus quality estimation
read_ploidy
*.hist.ploidy:file
Ploidy estimate from read k-mer database
*.hist.ploidy
hapmers_blob_png
*.hapmers.blob.png:file
Hap-mer blob plot
*.hapmers.blob.png
versions
versions.yml:file
File containing software versions
versions.yml
Evaluate genome assemblies with k-mers and more.
