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Omics-trail | Yet another blog on Bioinformatics tasks. Keeping it Simple !Yet another blog on Bioinformatics tasks. Keeping it Simple !
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Omics-trail | Yet another blog on Bioinformatics tasks. Keeping it Simple ! | harshinamdar.wordpress.com Reviews
https://harshinamdar.wordpress.com
Yet another blog on Bioinformatics tasks. Keeping it Simple !
harshinamdar.wordpress.com
Quick tutorial on DESeq2 | Omics-trail
https://harshinamdar.wordpress.com/2014/11/11/quick-tutorial-on-deseq2
Yet another blog on Bioinformatics tasks. Keeping it Simple! Quick tutorial on DESeq2. Here is quick tutorial on DESeq2 to get you started. This tutorial assumes you’ve already calculated the read counts for samples using htseq . Click here. For previous steps, beginning from tophat alignment till htseq count. You should now have two files with you :. 1 raw gene count.tbl # read counts for all the samples. 2 sample info.tbl # sample names and their condition status. Head raw gene count.tbl. Normalized va...
About | Omics-trail
https://harshinamdar.wordpress.com/about
Yet another blog on Bioinformatics tasks. Keeping it Simple! This is an example of a page. Unlike posts, which are displayed on your blog’s front page in the order they’re published, pages are better suited for more timeless content that you want to be easily accessible, like your About or Contact information. Click the Edit link to make changes to this page or add another page. Leave a Reply Cancel reply. Enter your comment here. Fill in your details below or click an icon to log in:.
harshinamdar | Omics-trail
https://harshinamdar.wordpress.com/author/harshinamdar
Yet another blog on Bioinformatics tasks. Keeping it Simple! Quick tutorial on DESeq2. Here is quick tutorial on DESeq2 to get you started. This tutorial assumes you’ve already calculated the read counts for samples using htseq . Click here. For previous steps, beginning from tophat alignment till htseq count. You should now have two files with you :. 1 raw gene count.tbl # read counts for all the samples. 2 sample info.tbl # sample names and their condition status. Head raw gene count.tbl. Normalized va...
Demultiplexing in Illumina | Omics-trail
https://harshinamdar.wordpress.com/2014/10/17/demultiplexing-in-illumina
Yet another blog on Bioinformatics tasks. Keeping it Simple! A typical paired end sequencing in HiSeq with 209 cycles:. Read R1 —– cycles 1 – 101. Read Index —– cycles 102 – 108. Read R2 —– cycles 109 – 209. An extra base is sequenced each for R1, Index and R2 to nullify the effect of uncertainty in base call, as the last base called would have low quality value. While demultiplexing using CASAVA specify the correct parameters for. Demultiplexing with different index length:. In this case :. Note : This ...
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Thesis submitted, articles in press | Matt Moores
https://mattstats.wordpress.com/2015/02/21/thesis-submitted-articles-in-press
Thesis submitted, articles in press. February 21, 2015. Some of my thesis papers have recently appeared online:. 8220;Pre-processing for approximate Bayesian computation in image analysis”. Moores, Drovandi, Mengersen and Robert (2015). 1): 23-33. DOI: 10.1007/s11222-014-9525-6. 8220;An external field prior for the hidden Potts model, with application to cone-beam computed tomography”. Moores, Hargrave, Deegan, Poulsen, Harden and Mengersen (2015). Computational Statistics and Data Analysis. July 12, 2016.
Graduation Ceremony | Matt Moores
https://mattstats.wordpress.com/2015/07/29/graduation-ceremony
July 29, 2015. I was very glad that I was able to attend my PhD graduation ceremony in Brisbane last week. My extended family were there to cheer me on, as well as both of my supervisors and my dear friend, Kal. Out of 28 doctorates there were a dozen from maths, including four statisticians. Unfortunately none of us snagged an Outstanding Doctoral Thesis Award, but it was nice to be nominated! Brisbane QLD, Australia. From → Uncategorized. Leave a Reply Cancel reply. Enter your comment here. June 3, 2016.
Talk at QUT on Friday August 7 | Matt Moores
https://mattstats.wordpress.com/2015/08/06/talk-at-qut-on-friday-august-7
Talk at QUT on Friday August 7. August 6, 2015. Lorentzian mixture model for Raman spectroscopy. Matt Moores (University of Warwick, UK). Friday 7 August 2015. 3:00pm – 4:00pm. O603, Gardens Point Campus, Queensland University of Technology. This is joint work with Mark Girolami. Warwick), Kirsten Gracie. Brisbane QLD, Australia. From → Functional Data. Talk at Oxford on Friday March 11 Matt Moores. Bayesian modelling and quantification of Raman spectroscopy Matt Moores. Leave a Reply Cancel reply. Ingma...
Big Data, Big Models, it is a Big Deal | Matt Moores
https://mattstats.wordpress.com/2014/08/13/big-data-big-models-it-is-a-big-deal
Big Data, Big Models, it is a Big Deal. August 13, 2014. I’ve submitted a poster to the Network on Computational Statistics and Machine Learning (NCSML) workshop “Big Data, Big Models, it is a Big Deal” at the University of Warwick on the 1st and 2nd of September. More details are available from the workshop homepage. My abstract is as follows:. Scalable Bayesian computation for intractable likelihoods in image analysis. From → MCMC. Leave a Reply Cancel reply. Enter your comment here. November 4, 2016.
International Workshop on Monte Carlo Methods for Spatial Stochastic Systems | Matt Moores
https://mattstats.wordpress.com/2015/06/24/international-workshop-on-monte-carlo-methods-for-spatial-stochastic-systems
International Workshop on Monte Carlo Methods for Spatial Stochastic Systems. June 24, 2015. I will be presenting a talk at the ACEMS International Workshop on Monte Carlo Methods for Spatial Stochastic Systems. MCMSS) at the University of Queensland, Brisbane, July 21-23 (abstract below). Other speakers include Gareth Roberts. Is now available online. I’ll also be giving a practice talk at the Warwick Young Researchers’ Meeting. Scalable Inference for the Inverse Temperature of a Hidden Potts Model.
R package bayesImageS | Matt Moores
https://mattstats.wordpress.com/2015/03/04/r-package-bayesimages
March 4, 2015. My R package, bayesImageS. Version 0.1-21, is now available online. It uses a hidden Potts model with additive Gaussian noise for image segmentation of 2D and 3D datasets. The latent labels z. Can be simulated using chequerboard updating or the Swendsen-Wang algorithm. Several methods for full Bayesian inference with intractable likelihoods are supported, including pseudolikelihood, the exchange algorithm, path sampling, and approximate Bayesian computation (ABC-MCMC and ABC-SMC). June 3, ...
bayesImageS::swNoData(..) | Matt Moores
https://mattstats.wordpress.com/2013/12/13/swnodata
December 13, 2013. This is the first in a series of posts describing the functions and algorithms that I have implemented in the. Gibbs sampling was originally designed by Geman and Geman (1984) for drawing updates from the Gibbs distribution, hence the name. However, single-site Gibbs sampling exhibits poor mixing due to the posterior correlation between the pixel labels. Thus it is very slow to converge when the correlation (controlled by the inverse temperature β) is high. Function in the PottsUtils.
Software Inventory for Mac OS X | Matt Moores
https://mattstats.wordpress.com/2014/09/10/software-inventory-for-mac-os-x
Software Inventory for Mac OS X. September 10, 2014. I listed all of the software that I usually install on Windows 7. Now that I’ve got an iMac with OS X Mavericks, it’s time to give an updated list:. From the App Store. For installing the Command Line Tools (you don’t need a full install of Xcode on Mavericks). 2014 (including TeX Live and TeXShop). 277 (X11 windowing system for OS X). Gcc and gfortran 4.9.0 from “ High Performance Computing for Mac OS X. Requires sudo to untar into /usr/local/bin.
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Harsh Improv Note # X. Grabbing a note. hold your horses. Out of ten, how much did you take it to heart? Let me read another. Harsh Improv Notes came out of the idea that we often give and receive notes in improvisation. More often than not we privately take them to heart, stewing on them and thinking them over long after the note was given. Seldom do we share the good notes and even more rarely do we take the time and publicly share the negative notes. And Rapid Fire Theatre on Facebook.
Omics-trail | Yet another blog on Bioinformatics tasks. Keeping it Simple !
Yet another blog on Bioinformatics tasks. Keeping it Simple! Quick tutorial on DESeq2. Here is quick tutorial on DESeq2 to get you started. This tutorial assumes you’ve already calculated the read counts for samples using htseq . Click here. For previous steps, beginning from tophat alignment till htseq count. You should now have two files with you :. 1 raw gene count.tbl # read counts for all the samples. 2 sample info.tbl # sample names and their condition status. Head raw gene count.tbl. Normalized va...
Harsh's Inc.
Thursday, March 26, 2009. Sorry couldnt blog for some time.2 days i think.i was helpless.mad mood u know? So plzzz post comments.i dont kno what topics to blog about plz tell me on ur comments some topics to blog. Monday, March 23, 2009. Friday, March 20, 2009. Hello people.im going for a trip to srirangapatna with friend.im sorry no blogging on sunday and monday.but ill surely put my experiences and what i did there.thnx a lot. Thursday, March 19, 2009. Hey bloggers u follow MTV Hero Honda Roadies?
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