sequencing
module in the data model
| Key | Key Description | Valid Values | columnType | Parent | module |
|---|---|---|---|---|---|
| directionalBSseqLibrary | Indicates whether or not the bisulfiteSeq library is directional | TRUE, FALSE, Unknown, Not collected, Not applicable, Not specified | STRING | ManifestColumn | sequencing |
| gDNAconc | gDNA Concentration in ng. Provide a value or Unknown Not collected Not applicable Not specified | STRING | ManifestColumn | sequencing | |
| isStranded | Whether or not the library is stranded. | FALSE,TRUE | BOOLEAN | ManifestColumn | sequencing |
| lambdaDNAconc | Lambda DNA spike-in concentration in ng. Provide a value or Unknown Not collected Not applicable Not specified | STRING | ManifestColumn | sequencing | |
| libraryPrep | The general strategy by which the library was prepared. Provide a value OR provide one of these values - Unknown Not collected, Not applicable, Not specified | amplicon, cellHashing, Chromium Single Cell 3', DNALibraryConstruction, EndItDNAEndRepairKit, KapaHyperPrep, lncRNAenrichment, methylSeq, miRNAenrichment, multiome, MULTIseq, PCRfree, polyAselection, proximity ligation, rRNAdepletion, snIsoSeq, SPLITseq, STARRSeq, SureCell, totalRNA, Unknown, Not collected, Not applicable, Not specified | STRING | ManifestColumn | sequencing |
| libraryPreparationMethod | Method by which library was prepared. Provide a value OR provide one of these values - Unknown Not collected, Not applicable, Not specified | 10x, Accel-NGS 2S Plus, Accel-NGS Methyl-Seq, CEL-seq, Drop-Seq, NEBNext, NexteraXT, Omni-ATAC, sac-seq, Smart-seq1, Smart-seq2, Smart-seq4, SMRTbell, TruSeq, Ultralow Methyl-Seq, Illumina DNA PCR-Free Prep Kit, Qiagen PreAnalytiX PAXgene Blood miRNA Kit, Unknown, Not collected, Not applicable, Not specified | STRING | ManifestColumn | sequencing |
| libraryVersion | Library Version- for example, rnaSeq 10x library version. Provide a value OR provide one of these values - Unknown Not collected, Not applicable, Not specified | STRING | ManifestColumn | sequencing | |
| meanCoverage | Total number of bases covered by ATAC-seq reads/size of genome. Provide a value or Unknown Not collected Not applicable Not specified | STRING | ManifestColumn | sequencing | |
| pcrCycles | Number of PCR cycles to amplify transposased DNA fragments. Provide a value or Unknown Not collected Not applicable Not specified | STRING | ManifestColumn | sequencing | |
| readLength | The length of the read. Provide a value or Unknown Not collected Not applicable Not specified | STRING | ManifestColumn | sequencing | |
| readStrandOrigin | The strand from which the read originates in a strand-specific protocol. | forward, reverse, stranded, unstranded, Unknown, Not collected, Not specified, Not applicable | STRING | ManifestColumn | sequencing |
| runType | The type of run | Not applicable,Not collected,Not specified,pairedEnd,singleEnd,singleEnd pairedEnd,Unknown | STRING | ManifestColumn | sequencing |
| totalReads | Total number of sequencing reads from a library. | STRING | ManifestColumn | sequencing |