Swate template MISAG - Single amplified genome
MISAG, Genomics, DNA Sequencing, single amplified genome, mandatory, bacterial genomes, Assembly
v1.0.0 released on 01/01/0001
145 Downloads
Template Content
Building Blocks + example values
| Input [Sample Name] | Parameter [cell lysis approach] | Term Source REF (DPBO:0000132) | Term Accession Number (DPBO:0000132) | Parameter [cell sorting technology] | Term Source REF (DPBO:0000133) | Term Accession Number (DPBO:0000133) | Parameter [whole genome amplification] | Term Source REF (DPBO:0000125) | Term Accession Number (DPBO:0000125) | Component [next generation sequencing instrument model] | Term Source REF (DPBO:0000040) | Term Accession Number (DPBO:0000040) | Parameter [taxonomic identity marker] | Term Source REF (DPBO:1000239) | Term Accession Number (DPBO:1000239) | 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 [completeness software] | Term Source REF (DPBO:1000240) | Term Accession Number (DPBO:1000240) | Characteristic [genome assembly quality] | Term Source REF (DPBO:1000236) | Term Accession Number (DPBO:1000236) | Characteristic [completeness score] | Term Source REF (DPBO:1000241) | Term Accession Number (DPBO:1000241) | Characteristic [contamination score] | Term Source REF (DPBO:1000242) | Term Accession Number (DPBO:1000242) | Output [Data] | Data Format | Data Selector Format |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| ambion single cell lysis kit | optical manipulation | multiple displacement amplification | Illumina MiSeq | EFO | https://bioregistry.io/EFO:0004205 | Bacterial 16S RNA | NCIT | https://bioregistry.io/NCIT:C105370 | metaSPAdes | 3.11.0 | kmer set 21,33,55,77,99,121, default parameters otherwise | checkm | high | 90% | 4% |
Release Notes
Currently Work in Progress 🚧Versions
| Version | Name | Release on |
| 1.0.0 | MISAG - Single amplified genome | 01/01/0001 |