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November 2023
The Utility of Long Reads...
Many years ago I wrote a paper called “An analysis of the feasibility of short read sequencing”. In this paper we looked at the percentage of substrings…
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Nava Whiteford
2
HiSeq X Cameras and 4 Color Fluorophores
This was supposed to be a easy… just take a few snaps of the cameras in the HiSeq X and write up a quick post… It turn into much more of a journey. It…
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Nava Whiteford
454.Bio And Reticula
454.Bio (Jonathan Rothberg’s new sequencing startup) has been pretty stealthy regarding how the technology actually works. But some patents are now…
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Nava Whiteford
2
An Ultima Genomics Sample Dataset
Running alignment and BEST against random HGP002 datasets is probably starting to get old. But there was at least one more I wanted to try. The Ultima…
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Nava Whiteford
2
Reticula Patent Search Reports!
Reticula is out of money! Does anyone want the IP? Or to otherwise help me keep the IP moving forward? Here are some recent search reports…
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Nava Whiteford
A Qitan Technology Nanopore Data Release
Browsing through random sequencing company websites (as you do) I noticed that Qitan Technology have released a couple of datasets from their platform…
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Nava Whiteford
Everything Wrong With: "Illumina: The Measurement Monopoly" Part 3/8
Century of Biology still has 10x the subscriptions I do… let’s continue to examine one the the articles posted there as part of this cathartic process…
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Nava Whiteford
3
Compute In The HiSeq X
My new old sequencer turned up today! It’s a HiSeq X! Believe it or not the HiSeq X is still supported by Illumina and will be until March of next year…
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Nava Whiteford
Oxford Nanopore Simplex Overall Error Rate ~3%? (Best model - New dataset)
After my previous posts on ONT Simplex data I received some great feedback in the Discord channel. So I decided to go search for a different dataset to…
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Nava Whiteford
PacBio Revio Error Rate is <0.3%?!
Some kind users on the Discord have pointed out that the fastqs provided by ONT discussed in the previous post may also have been called using the fast…
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Nava Whiteford
Everything Wrong With: "Illumina: The Measurement Monopoly" Part 2/8
I’ve created a second substack bitsof.bio. The first post is already up. The plan is to use that for quick short posts, without overwhelming things…
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Nava Whiteford
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