Prepare Samples
Data download options
Uploading your genome sequencing data to our private service is a straightforward process, but there are a few steps to ensure everything goes smoothly. First, we must prepare the samples for upload.
Sample types are split between pre-assembled genomes as FASTA and unassembled genomes in FASTQ format. Both, illumina- and Nanopore-sequenced files are compatible with this service. Compressed (gunzip) sequences can be uploaded for speed and convenience.
Sequencer Types
Illumina
Illumina sequencing generates short, high-quality reads that are ideal for assembling high-accuracy genomes. This type of data is often provided in FASTQ format.
Illumina HiSeq, MiSeq, NextSeq, NovaSeq
Nanopore
Nanopore sequencing produces long reads that can span entire genes or large genomic regions, making it useful for resolving complex regions of the genome. Nanopore data is also typically provided in FASTQ format and is valuable for assemblies where read length is crucial.
Oxford Nanopore MinION, GridION, PromethION
Sample Types
Depending on the sequencing machine, settings used, and post-processing, samples will produce different types of files.
FASTA
FASTA files contain already assembled genomic sequences, where the reads have been combined into longer contiguous sequences (contigs or scaffolds).
FASTQ
FASTQ files include raw sequencing reads with associated quality scores, providing detailed information for assembly or alignment processes.
FASTQ (compressed)
Compressed FASTQ files (gzipped) reduce file size for faster upload while still preserving the raw sequencing reads and quality scores.
How to retrieve genome sequence data
Let's identify your isolate using your isolate genome data or practice with the example files, provided.
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