biolektures.wordpress.com
Ion Torrent – Rapid Software Improvements | BioLektures
https://biolektures.wordpress.com/2011/09/19/ion-torrent-rapid-software-improvements
This blog contains mainly bioinformatics analysis and discussion. The Ion Torrent Accuracy Challenge – A non-biological explanation. Ion Torrent and the Democratization of Sequencing →. Ion Torrent – Rapid Software Improvements. September 19, 2011. There are three major areas that software can improve. Throughput – Identify more Ion Sphere Particles (ISPs) with library fragments therefore increasing the total number of reads. Quality – More and longer reads aligning back to the reference sequence. The ta...
biolektures.wordpress.com
Life Grand Challenges – Innocentive but not enough Incentives (Part 3) | BioLektures
https://biolektures.wordpress.com/2011/08/18/life-grand-challenges-–-innocentive-but-not-enough-incentives-part-3
This blog contains mainly bioinformatics analysis and discussion. Life Grand Challenges Mission Impossible to Improbable (Part 2). Challenges in Improving Ion Torrent Raw Accuracy (Part 3) →. Life Grand Challenges Innocentive but not enough Incentives (Part 3). August 18, 2011. Ever used IMDB or Rotten Tomatoes as an indicator of how good a movie is and whether you should watch it? While Tekken best movie ever only got 5.0 on IMDB. Competition was open in 2006 and would end in 2011. A progress prize of 5...
biolektures.wordpress.com
Disclaimer | BioLektures
https://biolektures.wordpress.com/disclaimer
This blog contains mainly bioinformatics analysis and discussion. My thoughts, opinions and random outburst are independent and do not reflect the views of the University of Sydney or the Institute for Neuroscience and Muscle Research. In fact, most people in my lab thinks I’m nuts and my jokes are terrible. I have received free dinner! Unfortunately, the Illumina free dinner at ASHG 2011 was invite only😦. Here are the parties I have received food from and my ratings out of 10. Other Mum’s (10/10)...
biolektures.wordpress.com
Are MiSeq miscalls influenced by preceding homopolymers? | BioLektures
https://biolektures.wordpress.com/2012/02/01/are-miseq-miscalls-influenced-by-preceding-homopolymers
This blog contains mainly bioinformatics analysis and discussion. Annotate: A Plugin for the Ion Torrent Browser. Crowd Sourcing 2.0 – Smaller and Faster = Better →. Are MiSeq miscalls influenced by preceding homopolymers? February 1, 2012. A recent post in the Ion Community Torrent Dev section presents an analysis showing MiSeq systematic substitution errors which appear to be caused by preceding homopolymers (HPs). The Omics Omics blog post. 2) E coli MG1655. From a recent Genome Biology publication.
biolektures.wordpress.com
Fundamentals of base calling (Part 1) | BioLektures
https://biolektures.wordpress.com/2011/08/10/fundamentals-of-base-calling-part-1
This blog contains mainly bioinformatics analysis and discussion. Fundamentals of base calling (Prequel). Fundamentals of base calling (Part 2) →. Fundamentals of base calling (Part 1). August 10, 2011. The Ionogram of a well containing. These are raw values extracted from the 1.wells file. Note: The flow order does not follow a repeating 4 flow cycle of T. Packages to produce the plots. The Ionogram of the same well containing. Below are the bases called for this well. This was the 5th best. As this bet...
crazyhottommy.blogspot.com
Diving into Genetics and Genomics: November 2016
http://crazyhottommy.blogspot.com/2016_11_01_archive.html
Diving into Genetics and Genomics. A wet biologist's bioinformatic notes. Mostly is about Linux, R, python, reproducible research, open science and NGS. I am into data science! I am working on cancer genomics and epigenomics at MD Anderson cancer center. Disclaimer: For posts that I copied from other places, credits go to the original authors. Follow the links to the original posts, I mainly put them here for my own future references. Friday, November 25, 2016. Compare boxplot, violin plot and sina plot.
crazyhottommy.blogspot.com
Diving into Genetics and Genomics: reorder boxplot according to median
http://crazyhottommy.blogspot.com/2017/01/reorder-boxplot-according-to-median_3.html
Diving into Genetics and Genomics. A wet biologist's bioinformatic notes. Mostly is about Linux, R, python, reproducible research, open science and NGS. I am into data science! I am working on cancer genomics and epigenomics at MD Anderson cancer center. Disclaimer: For posts that I copied from other places, credits go to the original authors. Follow the links to the original posts, I mainly put them here for my own future references. Tuesday, January 3, 2017. Reorder boxplot according to median. Why I a...
crazyhottommy.blogspot.com
Diving into Genetics and Genomics: June 2016
http://crazyhottommy.blogspot.com/2016_06_01_archive.html
Diving into Genetics and Genomics. A wet biologist's bioinformatic notes. Mostly is about Linux, R, python, reproducible research, open science and NGS. I am into data science! I am working on cancer genomics and epigenomics at MD Anderson cancer center. Disclaimer: For posts that I copied from other places, credits go to the original authors. Follow the links to the original posts, I mainly put them here for my own future references. Thursday, June 30, 2016. How to deal with paired samples for snakemake.
crazyhottommy.blogspot.com
Diving into Genetics and Genomics: December 2016
http://crazyhottommy.blogspot.com/2016_12_01_archive.html
Diving into Genetics and Genomics. A wet biologist's bioinformatic notes. Mostly is about Linux, R, python, reproducible research, open science and NGS. I am into data science! I am working on cancer genomics and epigenomics at MD Anderson cancer center. Disclaimer: For posts that I copied from other places, credits go to the original authors. Follow the links to the original posts, I mainly put them here for my own future references. Tuesday, December 27, 2016. The End of 2016. I am so grateful for this...
crazyhottommy.blogspot.com
Diving into Genetics and Genomics: September 2016
http://crazyhottommy.blogspot.com/2016_09_01_archive.html
Diving into Genetics and Genomics. A wet biologist's bioinformatic notes. Mostly is about Linux, R, python, reproducible research, open science and NGS. I am into data science! I am working on cancer genomics and epigenomics at MD Anderson cancer center. Disclaimer: For posts that I copied from other places, credits go to the original authors. Follow the links to the original posts, I mainly put them here for my own future references. Thursday, September 22, 2016. Let’s use a microarray data for de...
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