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- HOW TO CONVERT A FILE INTO EXTRA BASE HOW TO
- HOW TO CONVERT A FILE INTO EXTRA BASE SOFTWARE
- HOW TO CONVERT A FILE INTO EXTRA BASE PLUS
- HOW TO CONVERT A FILE INTO EXTRA BASE WINDOWS
More detailed information on the FASTQ sequence file format can be found here.įASTQ files can contain up to millions of entries and can be several megabytes or gigabytes in size, which often makes them too large to open in a normal text editor. Here is an example of a single entry in a R1 FASTQ file: These are Phred +33 encoded, using ASCII characters to represent the numerical quality scores.
HOW TO CONVERT A FILE INTO EXTRA BASE PLUS
A separator, which is simply a plus (+) sign.The sequence (the base calls A, C, T, G and N).
HOW TO CONVERT A FILE INTO EXTRA BASE SOFTWARE
The exact contents of this line vary by based on the BCL to FASTQ conversion software used. A sequence identifier with information about the sequencing run and the cluster.Each entry in a FASTQ files consists of 4 lines: FASTQ files are compressed and created with the extension *.fastq.gz.įor each cluster that passes filter, a single sequence is written to the corresponding sample’s R1 FASTQ file, and, for a paired-end run, a single sequence is also written to the sample’s R2 FASTQ file. For a paired-end run, one R1 and one Read 2 (R2) FASTQ file is created for each sample for each lane. If samples were not multiplexed, the demultiplexing step does not occur, and, for each flow cell lane, all clusters are assigned to a single sample.įor a single-read run, one Read 1 (R1) FASTQ file is created for each sample per flow cell lane. After demultiplexing, the assembled sequences are written to FASTQ files per sample. Demultiplexing assigns clusters to a sample, based on the cluster’s index sequence(s). If samples were multiplexed, the first step in FASTQ file generation is demultiplexing. This process is called BCL to FASTQ conversion.Ī FASTQ file is a text file that contains the sequence data from the clusters that pass filter on a flow cell (for more information on clusters passing filter, see the “additional information” section of this bulletin). When sequencing completes, the base calls in the BCL files must be converted into sequence data. RTA stores the base call data in the form of individual base call (or BCL) files. During SBS chemistry, for each cluster, base calls are made and stored for every cycle of sequencing by the Real-Time Analysis (RTA) software on the instrument. “Base64 Decode by line” can decode multiple separate Base64 strings at once if they’re on new lines.Illumina sequencing technology uses cluster generation and sequencing by synthesis (SBS) chemistry to sequence millions or billions of clusters on a flow cell, depending on the sequencing platform. “Base64 Decode strict” decodes a single Base64 string but will throw an error message if an unexpected character is detected, such as “&”. “Base64 Decode” decodes a single Base64 encoded string but may show corrupted output if there are unexpected characters. “Base64 Encode by line” encodes each separate line of data into a separate Base64 string. This can be helpful if a Unix Based command-line decoder is failing to decode the data.
HOW TO CONVERT A FILE INTO EXTRA BASE WINDOWS
“Base64 Encode with Unix EOL” specifically uses an “End Of Line” (EOL) character used by Unix systems, rather than the default Windows EOL. “Base64 Encode with padding” encodes all selected data but includes the padding where it’s needed. This could cause compatibility issues with some Base64 decoders. “Base64 Encode” encodes all of the selected data into one Base64 string but omits the padding character even if it’s needed. Ensure you highlight the data to be processed before clicking “Plugins”, then MIME Tools”, and selecting a process. Tip: The encoders only work on selected data, make sure you highlight all the data you want encoded first. In the second level of the menu you can see all of the Base64 encode and decode options. Next, click on “Plugins” in the top bar, then “MIME Tools”. To encode or decode Base64 data you need to first highlight the entire range of data you want to be encoded or decoded.
HOW TO CONVERT A FILE INTO EXTRA BASE HOW TO
How to Base64 encode and decode in Notepad++
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