Swate template minSCe - Single cell sequencing
single-cell RNA sequencing assay, RNA sequencing assay, minSCe, Transcriptomics
v1.0.0 released on 05/15/2025
120 Downloads
Template Content
Building Blocks + example values
| Input [Sample Name] | Protocol Type | Term Source REF (DPBO:1000161) | Term Accession Number (DPBO:1000161) | Protocol REF | Protocol Description | Parameter [Sequencing Library Read Layout Indicator] | Term Source REF (NCIT:C175894) | Term Accession Number (NCIT:C175894) | Component [sequencer] | Term Source REF (EFO:0003739) | Term Accession Number (EFO:0003739) | Parameter [Sequencing Library Name] | Term Source REF (NCIT:C182058) | Term Accession Number (NCIT:C182058) | Parameter [UMI barcode read] | Term Source REF (EFO:0010208) | Term Accession Number (EFO:0010208) | Parameter [UMI barcode offset] | Unit | Term Source REF (EFO:0010207) | Term Accession Number (EFO:0010207) | Parameter [UMI barcode size] | Unit | Term Source REF (EFO:0010209) | Term Accession Number (EFO:0010209) | Parameter [cell barcode read] | Term Source REF (EFO:0010203) | Term Accession Number (EFO:0010203) | Parameter [cell barcode offset] | Unit | Term Source REF (EFO:0010204) | Term Accession Number (EFO:0010204) | Parameter [cell barcode size] | Unit | Term Source REF (EFO:0010205) | Term Accession Number (EFO:0010205) | Parameter [cDNA read] | Term Source REF (EFO:0010195) | Term Accession Number (EFO:0010195) | Parameter [cDNA read offset] | Unit | Term Source REF (EFO:0010201) | Term Accession Number (EFO:0010201) | Parameter [cDNA read size] | Unit | Term Source REF (EFO:0010202) | Term Accession Number (EFO:0010202) | Parameter [sample barcode read] | Term Source REF (EFO:0010210) | Term Accession Number (EFO:0010210) | Parameter [sample barcode offset] | Unit | Term Source REF (EFO:0010211) | Term Accession Number (EFO:0010211) | Parameter [sample barcode size] | Unit | Term Source REF (EFO:0010212) | Term Accession Number (EFO:0010212) | Characteristic [read 1 file] | Term Source REF (SCEO:0000007) | Term Accession Number (SCEO:0000007) | Characteristic [read 2 file] | Term Source REF (SCEO:0000008) | Term Accession Number (SCEO:0000008) | Characteristic [index 1 file] | Term Source REF (SCEO:0000048) | Term Accession Number (SCEO:0000048) | Characteristic [index 2 file] | Term Source REF (SCEO:0000049) | Term Accession Number (SCEO:0000049) | Characteristic [Checksum] | Term Source REF (NCIT:C43522) | Term Accession Number (NCIT:C43522) | Characteristic [white list barcode file] | Term Source REF () | Term Accession Number () | Output [Data] | Data Format | Data Selector Format |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| nucleic acid sequencing protocol | EFO | https://bioregistry.io/EFO:0004170 | single-end library | OBI | https://bioregistry.io/OBI:0002481 | Illumina NovaSeq 6000 | EFO | https://bioregistry.io/EFO:0008637 | my_library_1 | read1 | SCEO | http://purl.obolibrary.org/obo/SCEO_0000027 | 16 | base pair | UO | https://bioregistry.io/UO:0000244 | 10 | base pair | UO | https://bioregistry.io/UO:0000244 | read1 | SCEO | http://purl.obolibrary.org/obo/SCEO_0000027 | 8 | base pair | UO | https://bioregistry.io/UO:0000244 | 8 | base pair | UO | https://bioregistry.io/UO:0000244 | read2 | SCEO | http://purl.obolibrary.org/obo/SCEO_0000026 | 0 | base pair | UO | https://bioregistry.io/UO:0000244 | 98 | base pair | UO | https://bioregistry.io/UO:0000244 | read1 | SCEO | http://purl.obolibrary.org/obo/SCEO_0000027 | 8 | base pair | UO | https://bioregistry.io/UO:0000244 | 8 | base pair | UO | https://bioregistry.io/UO:0000244 | File1_R1.fastq.gz | File1_R2.fastq.gz | File1_I1.fastq.gz | File1_I2.fastq.gz | ab21a9c0f2007890fe2fbe48df0519f9 | 3M-3pgex-may-2023.txt.gz |