Sample Information
Choose from the following options to record information about your samples, such as sample ID and which index adapters are used for pooling.
- If connected to the cloud, you can use Run Planning in BaseSpace Sequence Hub.
- If connected to your local network, you can use the sample sheet v2 template available from the remote control software.
- If not connected to your local network, you can use the the sample sheet generated by a completed run.
Data Analysis
Use Sequencing Analysis Viewer or BaseSpace Sequence Hub to monitor real-time quality metrics during a run.
To analyze sequencing data, choose from the following options:
The NovaSeq X Plus Sequencing System performs secondary analysis using the on-intsrument Illumina DRAGEN BIO-IT Platform server. Refer to the NovaSeq X Plus Product Documentation for more information.
Reference Genomes
On-instrument Reference Genomes
| Genome Name | Display Name | Species | GTF Available |
|---|---|---|---|
| hg19_alt_masked+cnv+hla+rna_v2 | Homo sapiens [UCSC] hg19 Alt Masked v2 | Homo sapiens [Human] | Yes |
| hg19_alt_masked_graph+cnv+hla+rna_v2 | Homo sapiens [UCSC] hg19 Alt Masked v2 Graph | Homo sapiens [Human] | Yes |
| hs37d5+cnv+rna | Homo sapiens [NCBI] hs37d5 | Homo sapiens [Human] | Yes |
| hs37d5_graph_based | Homo sapiens [NCBI] hs37d5 Graph | Homo sapiens [Human] | Yes |
| hg38_alt_masked+cnv+hla+rna_v2 | Homo sapiens [1000 Genomes] hg38 Alt Masked v2 | Homo sapiens [Human] | Yes |
| hg38_alt_masked_graph+cnv+hla+rna_v2 | Homo sapiens [1000 Genomes] hg38 Alt Masked v2 Graph | Homo sapiens [Human] | Yes |
| hg38-noalt-with-decoy | Homo sapiens [1000 Genomes] hg38 No Alt Haps | Homo sapiens [Human] | Yes |
| A_Thaliana | A. thaliana [TAIR] TAIR10 | Arabidopsis Thaliana | No |
| eschColi_K12_1 | E. coli [NCBI] K12 MG1655 | Escherichia Coli [Strain K12] | No |
| mm10 | Mus musculus [UCSC] mm10 | Mus Musculus [House Mouse] | Yes |
| phix | Microvirus Escherichia virus phiX174 [NCBI]PhiX | PhiX | No |
| rn6 | Rattus norvegicus [UCSC] rn6 | Rattus Norvegicus [Norway Rat] | Yes |
| Rhodobacter_sphaeroides_2.4.1_12905 | R.sphaeroides [NCBI] 2.4.1 | Rhodobacter Sphaeroides [Bacterium] | No |
| Bacillus_cereus_ATCC_10987 | B. cereus [NCBI] ATCC_10987 | Bacillus Cereus [Bacterium] | No |
| WBcel235 | C. elegans [Ensembl] WBcel235 | Caenorhabditis Elegans [Roundworm] | No |
| eschColi_K12_1 | E.Coli Strain K12 | Escherichia Coli [Strain K12] | No |