In your run directory, you should have these files:
./Data/Intensities/BaseCalls/config.xml
./Data/Intensities/config.xml
I think they are missing in your case.
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Error in bcl to fastq
Thanks seb567, no I don't have a sample-sheet. I just want to convert bcl to fastq.Leave a comment:
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I think it may be trying to use a XML file as the sample sheet for demultiplexing your data.
Did you provide --sample-sheet ?
See https://github.com/sebhtml/FastDemul...with-CASAVA.sh
for an example.
Sébastien Boisvert
Originally posted by tahamasoodi View PostLeave a comment:
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BCL to FASTQ conversion error
I am using CASAVA 1.8.2 on a separate machine and trying to convert bcl files generated by Hiseq 2000 to fastq but I am getting an error message that config.xml file does not exist at /usr/local/lib/CASAVA-1.8.2/perl/Casava/Demultiplex.pm line 111.
Can anyone please help me out from this issue.
Thanks
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Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.
The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
...06-02-2026, 10:05 AM -
With the launch of new single-cell sequencing platforms in 2026, the field stands at an exciting inflection point. This article surveys the most impactful advances in the field and discusses how they’re reshaping research in cancer, immunology, and beyond.
Introduction
Single-cell sequencing technologies have undergone remarkable advances over the past decade, transitioning from low-throughput experimental approaches to highly scalable platforms capable of...05-22-2026, 06:42 AM
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