Tweet
Does any body have paired end illumina data they are willing to share for the purposes of testing euler-sr? I'd prefer bacterial genomes, and am willing to sign any required non-disclosure agreements.
Thanks,
-mark
Thanks,
-mark
-
-
How about the K12 genome from CLC. It's provided for evaluation of their Genomics Workbench. They have Illumina (E. coli K12), ABI (S. suis) and Roche (E. coli K12) data sets. Click the link below saying "Alternatively, you can download the raw data here".
-
Thanks for the link... they are an interesting company.Originally posted by ScottC View Post
I should mention that I'm looking for anything but K12.Comment
-
theres about 300GB of paired end illumina data at NCBI - all Human.Comment
-
... more clarification ...
ideally bacterial or small fungal genomes. I'm working on de novo assembly, and my code isn't mature enough to handle the complicated mammalian repeat structure.Last edited by mchaisso; 07-06-2008, 09:55 PM.Comment
-
The NCBI short read archive might have some.
It certainly has some 454 FLX (paired) data, and some "Illumina GA" data for Bacteria, but unclear if it is paired.Comment
-
This is what Clive was talking about:
ftp://ftp.ncbi.nih.gov/pub/TraceDB/ShortRead/SRA000271/
40X human resequencing. All PE reads. They have been there for a month or so. (Sorry, not for bacteria...)Comment
-
Mark,
I know its not what you were asking for in this post, but if a set of 454 reads (~600k raw reads) would be useful for testing Euler-SR, I'd be happy to share those with you in exchange for a quick explanation of the output from this program
Comment
-
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
Comment