Swate template MIMAG - Metagenome-assembled genome
Metagenomics, MIMAG, mandatory, Data Processing, Computation, Assembly
v1.0.2 released on 01/01/0001
by Angela Kranz
145 Downloads
Template Content
Building Blocks + example values
| Input [Data] | Data Format | Data Selector Format | Component [next generation sequencing instrument model] | Term Source REF (DPBO:0000040) | Term Accession Number (DPBO:0000040) | Component [assembly software] | Term Source REF (DPBO:1000234) | Term Accession Number (DPBO:1000234) | Parameter [sequence assembly algorithm version] | Term Source REF (DPBO:0000060) | Term Accession Number (DPBO:0000060) | Parameter [assembly parameters] | Term Source REF (DPBO:1000235) | Term Accession Number (DPBO:1000235) | Component [binning software] | Term Source REF (DPBO:1000237) | Term Accession Number (DPBO:1000237) | Parameter [binning parameters] | Term Source REF (DPBO:1000238) | Term Accession Number (DPBO:1000238) | Parameter [genome assembly quality] | Term Source REF (DPBO:1000236) | Term Accession Number (DPBO:1000236) | Parameter [taxonomic identity marker] | Term Source REF (DPBO:1000239) | Term Accession Number (DPBO:1000239) | Component [completeness software] | Term Source REF (DPBO:1000240) | Term Accession Number (DPBO:1000240) | Parameter [completeness score] | Term Source REF (DPBO:1000241) | Term Accession Number (DPBO:1000241) | Parameter [contamination score] | Term Source REF (DPBO:1000242) | Term Accession Number (DPBO:1000242) | Output [Data] | Data Format | Data Selector Format |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Illumina MiSeq | EFO | https://bioregistry.io/EFO:0004205 | metaSPAdes | 3.11.0 | kmer set 21,33,55,77,99,121, default parameters otherwise | metabat | homology search, kmer, coverage, codon usage, combination | high | Bacterial 16S RNA | NCIT | https://bioregistry.io/NCIT:C105370 | checkm | 90% | 4% |