Sequencing instruments by number
A quick one: I made this plot earlier today for a presentation. The data is from our Omicsmaps site which I curate with James Hadfield. Didn’t actually use it in the end but thought I’d post it in case it was useful for someone. Notable is the rise in HiSeq reciprocated by the decline in [...]
Adaptor trim or die: Experiences with Nextera libraries
One of the first posts I did on this blog, way back in September 2009 was about my experiences with filtering and trimming Illumina sequences, and it proved rather popular. To date, it has been viewed a whopping 8,560 times! But funnily enough, since that post was written my attitude towards filtering Illumina data slowly [...]
Sequencing data: I want the truth! (You can’t handle the truth!)
Two sequencing papers caught my eye this week. This letter from Piskol and Li is perhaps the final nail in the coffin for the heavily criticised and debunked (also see: GenomesUnzipped) RNA editing paper from Li and Cheung published in Science in early 2011 (as Thomas Keane said on Twitter: ‘I can’t believe people are still debating this!). The letter Piskol and Li examined [...]
Properly awesome: HiSeq 2500 2×151 rapid run streaming to BaseSpace
OK, I think this is awesome enough to share with you guys. These are some metagenomics samples being run on a HiSeq 2500 in 2x151bp rapid run mode, with the results being streamed to BaseSpace in real-time. What I love about this is that the various statistics and metrics update in real-time. I spent a [...]
Seqbench: A useful meta-database of sequence reads from multiple platforms
Some thoughts on today’s Ion World announcements
A few significant announcements from Ion World today (sourced from the press release and #ionworld Tweets) which I’ve summarised here: Proton III and Avalanche The Ion Proton is now shipping and Life Tech plan to ship 100 instruments to customers in September. The initial chip, Proton I (“PI”) will do 60-80m reads and “up to 10Gb” of [...]
Map of high-throughput instruments: What can you do with the data?
I’m going to try and get myself in the habit of more frequent, smaller updates. A few people have started using the data from Omicsmaps.com, the world-map of high-throughput sequencing instruments that James Hadfield and I run to power their own projects, which we think is great. For example a service called Findini is scraping [...]
Benchtop Sequencer Comparison paper
In case you haven’t seen our recent paper, you can download the paper here (subscription required): http://dx.doi.org/10.1038/nbt.2198 Performance comparison of benchtop high-throughput sequencing platforms Nature Biotechnology advance online publication published online 22 April 2012 Nicholas J Loman, Raju V Misra, Timothy J Dallman, Chrystala Constantinidou, Saheer E Gharbia, John Wain & Mark J Pallen Here is a press [...]