Hi everyone, a few days ago we had a MiSeq run, but it failed for some reasons. My job was to find out what was the problem, but I had never been working with MiSeq run data before, so I need a little help. I have that first (and very strong) assumption, that the dispersion of the DNA solution on the flow cell was uneven (missing data in tiles, stdev of density was enormous, photos, etc), therefore the software could not work up the data properly. However I found out that in the Run Summary doc. the starting read no. is ~27 million, and the read no. PS is ~700k, but in the indexing QC doc. the starting read number is ~1,6 million, and the read no. PS is ~600k, and I wonder what does this means? Also I want to find out if this information supports my colleague's assumption, that the indexing of the DNA went wrong (in wetlab). Thanks in advance for help! :)
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Hello gerberd1990!
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Not related to bioinformatics, more appropriate at http://seqanswers.com/
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Seqanswers seems down for now... inconvenient.
I agree with Wouter that this is not a bioinformatics question, instead such questions are genuine support requests to send to the vendor of the product. Neither seqanswers nor biostars are good drop-in replacements for commercial support, nor would it be fair use of volunteer resources. Remember that the instruments, reagents or support contracts cost possibly in the 10k $. I believe that in return you can expect that they will at least assist you when things go wrong, and most likely they will be very responsive.