User: rbierman

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rbierman30
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Posts by rbierman

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Comment: C: Cluster position units in fastq file
... Thanks for the link! My understanding is that @Brian would have no need to convert from pixels to physical units in `clumpify.sh`, but this does suggest that the positions do have a physical intepretation ...
written 3 months ago by rbierman30
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Comment: C: Cluster position units in fastq file
... I also opened this question on stack overflow and have more details there (link https://stackoverflow.com/questions/49182629/cluster-position-units-in-fastq-file). TL;DR The required measurements are proprietary, but using the cluster densities provided you can make estimates of the number of pixels ...
written 3 months ago by rbierman30
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Comment: C: Cluster position units in fastq file
... Thank you for your comment. I don't see why clusters forming ad hoc on a non-patterned flowcell would prohibit measurement. Since the readout is microscopy wouldn't using the known magnification and observed distance between clusters and a defined origin allow you to convert to known units? ...
written 3 months ago by rbierman30
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Cluster position units in fastq file
... I have a fastq file with headers that include positions in the same format as the [wikipedia example][1] for fastq: @HWUSI-EAS100R:6:73:941:1973#0/1 I know that `(x,y)` is `(941,1973)`, but what are the units? Microns? Some illumina unit? If there was another cluster at `(931, 1973)` would th ...
fastq rna-seq written 3 months ago by rbierman30

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Student 3 months ago, asked a question with at least 3 up-votes. For Cluster position units in fastq file

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