HAROLDPIMENTEL.WORDPRESS.COM
The farrago | A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z]+)A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z]+)
http://haroldpimentel.wordpress.com/
A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z]+)
http://haroldpimentel.wordpress.com/
TODAY'S RATING
>1,000,000
Date Range
HIGHEST TRAFFIC ON
Monday
LOAD TIME
0.8 seconds
16x16
32x32
PAGES IN
THIS WEBSITE
9
SSL
EXTERNAL LINKS
9
SITE IP
192.0.78.13
LOAD TIME
0.828 sec
SCORE
6.2
The farrago | A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z]+) | haroldpimentel.wordpress.com Reviews
https://haroldpimentel.wordpress.com
A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z]+)
haroldpimentel.wordpress.com
In RNA-Seq, 2 != 2: Between-sample normalization | The farrago
https://haroldpimentel.wordpress.com/2014/12/08/in-rna-seq-2-2-between-sample-normalization
A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z] ). December 8, 2014. In RNA-Seq, 2! In this post I will discuss between-sample normalization (BSN), which is often called library size normalization (LSN), though, I don’t particularly like that term. Here, I will refer to it as BSN. The post is guided towards scientists that don’t come from a mathematics background and people who are new to RNA-Seq. Not so random aside:. After many chats/rants with Nick Bray. Finding a “control se...
haroldpimentel | The farrago
https://haroldpimentel.wordpress.com/author/haroldpimentel
A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z] ). I'm a PhD candidate at UC Berkeley in the CS department working on statistics and interested in biology. The current state of R support in Atom. November 28, 2016. Bluetooth keyboard switch with Arduino. September 8, 2016. The power of randomness: Pham vs Gap Part II. January 22, 2015. Optimal “k” when there’s no cluster? Pham vs Gap Part I. December 29, 2014. In RNA-Seq, 2! December 8, 2014. A review of RNA-Seq expression units.
The power of randomness: Pham vs Gap Part II | The farrago
https://haroldpimentel.wordpress.com/2015/01/22/the-power-of-randomness-pham-vs-gap-part-ii
A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z] ). January 22, 2015. The power of randomness: Pham vs Gap Part II. This is part two of two looking at the performance of methods for determining the number of clusters in. Means clustering. For part one, see Optimal k when there’s no cluster? Pham vs Gap Part I. All of the examples, as well as plots can be found at this Github repo. In the previous post. We looked at how the gap statistic and Pham. Method, also by Tibshirani. Randomly pa...
What the FPKM? A review of RNA-Seq expression units | The farrago
https://haroldpimentel.wordpress.com/2014/05/08/what-the-fpkm-a-review-rna-seq-expression-units
A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z] ). May 8, 2014. A review of RNA-Seq expression units. This post covers the units used in RNA-Seq that are, unfortunately, often misused and misunderstood. I’ll try to clear up a bit of the confusion here. Throughout this post “read” refers to both single-end or paired-end reads. The concept of counting is the same with either type of read, as each read represents a fragment that was sequenced. Finally, I use the random variable. These nu...
Optimal “k” when there’s no cluster? Pham vs Gap Part I | The farrago
https://haroldpimentel.wordpress.com/2014/12/29/optimal-k-when-theres-no-cluster-gap-vs-pham-part-i
A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z] ). December 29, 2014. Optimal “k” when there’s no cluster? Pham vs Gap Part I. Clustering is a fairly common and useful algorithm. One of the difficulties in using. Means is choosing the number of clusters,. I use the gap statistic pretty regularly for choosing. In my analyses as I’ve found it to perform reasonably well in practice. Recently, I’ve been thinking a bit about clustering on Spark. Is the number of data points (sample size).
TOTAL PAGES IN THIS WEBSITE
9
RPKM, FPKM and TPM, clearly explained | Statquest
https://statquest.org/2015/07/09/rpkm-fpkm-and-tpm-clearly-explained
An epic journey through computational methods for molecular geneticists. RPKM, FPKM and TPM, clearly explained. RPKM, FPKM and TPM, clearly explained. July 9, 2015. July 22, 2015. Warning: This StatQuest is specifically for people who do high-throughput RNA sequencing (RNA-seq). If that’s what you’re interested in, quest on! These three metrics attempt to normalize for sequencing depth and gene length. Here’s how you do it for RPKM:. Count up all the RPK values in a sample and divide this number by 1,000...
“Alignment free” transcriptome quantification | Simon's Blog
https://sjcockell.me/2015/05/18/alignment-free-transcriptome-quantification
A bioinformatician's (infrequent) musings. 8220;Alignment free” transcriptome quantification. Last week a pre-print was published describing Kallisto. 8211; a quantification method for RNA-Seq reads described (by the authors) as ‘near optimal’. Here is Lior Pachter’s associated blog post. Kallisto follows a current trend for ‘alignment free’ quantification methods for RNA-Seq analysis, with recent methods including Sailfish. And it’s successor, Salmon. In Kallisto parlance,. Building a test set. Transcri...
BamHash and some insights from information theory | Bits of Bioinformatics
https://pmelsted.wordpress.com/2015/03/03/bamhash-and-some-insights-from-information-theory
Skip to primary content. BamHash and some insights from information theory. March 3, 2015. We have a new preprint. Out for a tool called BamHash. I’ll get to what it does and how it works in a bit, but first the why. This tool was built because we needed it at deCODE. Magic we get a shiny BAM file. To illustrate the question consider the following conversation. Is it safe to delete that FASTQ file? I just explained why it was safe why are you asking again? Is there something wrong with my pipeline? Can y...
March | 2015 | Bits of Bioinformatics
https://pmelsted.wordpress.com/2015/03
Skip to primary content. Skip to secondary content. Monthly Archives: March 2015. BamHash and some insights from information theory. March 3, 2015. We have a new preprint. Out for a tool called BamHash. I’ll get to what it does and how it works in a bit, but first the why. This tool was built because we needed it at deCODE. Magic we get a shiny BAM file. To illustrate the question consider the following conversation. Is it safe to delete that FASTQ file? Is there something wrong with my pipeline? No, you...
TOTAL LINKS TO THIS WEBSITE
9
Home : Harold H Philipsen : Northwestern Mutual Wealth Management Company
Harold H Philipsen, CFP. Williamsburg, VA 23185. Market and Economic Commentary. Harold H Philipsen, CFP. Williamsburg, VA 23185. PROVIDING PEACE OF MIND FOR YOU. AND GENERATIONS TO COME. Who's Sitting at your Table? We want to be at the center of your financial life. We sit on your side of the table and use a consistent process to help you make wise decisions. Click below for an overview. Why We Are Different. If our process might benefit you, our contact information is to your left. Executives or busin...
Harold Phillips: Actor
The wait is over, Falls. Fans - The Falls: Covenant of Grace. Is now available for streaming on Amazon, Itunes, and many Video-on-Demand services! Head to the Store page. For links to Amazon and ITunes! Harold was recently featured in an article on University of Alaska, Anchorage Department of Theater and Dance. Alumni. Click here. To read the article! The Falls: Testament of Love.
home
YOUTH AND HIGH SCHOOL SPORTS PHOTOGRAPHY FOR OVER THIRTY. YEARS ON THE CONNECTICUT SHORE. Website Designed at Homestead Create a Website.
haroldphoto.com
HPC, LLC - Ames, Iowa General Contractor, Commercial Construction
Commercial Contractor and Construction serving Ames, Iowa. Before you get started, learn about our pre-construction services including planning, consulting design, permits and more. Let us help you through your construction. Process with ease. Learn about the services we provide during the production stages. It’s not over once the construction is done. Learn about how we make sure everything is up to standards and all of our project closeout services. Heartwood House Alzheimer Unit at Northcrest.
The farrago | A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z]+)
A place for my thoughts on comp bio, statistics, cycling(, [a-zA-Z] ). November 28, 2016. The current state of R support in Atom. This is a guide to the current state of R support in Atom. I’m not writing this as an expert on Atom, merely as a user. This guide is geared towards Mac as I do not have experience on either Linux or Windows. All of these packages can be installed with the Atom package manager either via commandline (. Or in the GUI (. I am the maintainer of. The syntax highlighting for. Parse...
Harold Pinchbeck: Luxury English Watches
YOUR HAROLD PINCHBECK WATCH NEVER SHOUTS! It just whispers good taste. 300 YEARS OF WATCH AND CLOCK MAKING UNFOLDED INTO THE 21ST CENTURY. READ WHAT JUST A HANDFUL OF OUR CUSTOMERS SAY ABOUT THEIR WATCHES AND THE WONDERFUL SERVICE THEY RECEIVE. HAROLD PINCHBECK TODAY AND WHAT MAKES OUR WATCHES, AND CUSTOMER SERVICE, SO SPECIAL. DISCOVER THE HAROLD PINCHBECK BESPOKE SERVICE. Choose ‘off the peg’ from our Premier Range. Mdash; Jack Brooksbank. Mdash; Mark Upham - CEO. Brough Superior Motorcycles. Elegant w...
El Palacio de la Luna
Tu i jo i tots els animals del bosc. Tu i jo i tots els animals del bosc". Estrena demà diumenge a les 23:45h. a TV Badalona i TV L'Hospitalet. 13 capítols de 8 minuts, un per setmana. Un format original de: Lluís de Sola. Coproduït per: La càmera enamorada i Xarxa de Televisions Locals DO. Realització i edició: Lluís de Sola. Noi estrany: Xavier Valls. So directe: Jordi Valls. Tu i jo i tots els animals del bosc. Jorge Drexler - Las transeuntes. Uno de los Grandes. HUGO, de unos 35 años. Sobre el meu cap.
www.haroldpinter.com
Welcome to Harold Pinter.org
SOCIAL ENGAGEMENT