simpsonlab.github.io

Simpson Lab Blog · SimpsonLab blog

Supporting R9 data in nanopolish. Two weeks ago I mentioned on twitter that I pushed a large series of changes to support R9 Oxford Nanopore data in nanopolish. I promised a blog post describing the changes then went off on my summer vacation - here it is, a little late. First, some background about R9 data. Back in March Clive Brown held a google hangout. On github contains instructions for using the new consensus workflow. ONT provided my lab with a batch of the latest flowcells. So far we have mostly ...

http://simpsonlab.github.io/

OVERVIEW OF simpsonlab.github.io

TRAFFIC RANK

>1,000,000

REVIEWS

0

PAGES IN THIS WEBSITE

7

LINKS TO THIS WEBSITE

CONTACTS

ADDRESSES

SOCIAL LINKS

ONLINE SINCE

WEBSITE DETAILS

SEO

PAGES

SIMILAR SITES

TRAFFIC RANK FOR SIMPSONLAB.GITHUB.IO

TODAY'S RATING

>1,000,000

TRAFFIC RANK - AVERAGE PER MONTH

BEST MONTH

December

AVERAGE PER DAY Of THE WEEK

HIGHEST TRAFFIC ON

Saturday

TRAFFIC BY CITY

Sign up

CUSTOMER REVIEWS

Average Rating: 4.4 out of 5 with 14 reviews

5 star

7

4 star

5

3 star

2

2 star

0

1 star

0

Hey there! Start your review of simpsonlab.github.io

AVERAGE USER RATING

Write a Review

WEBSITE PREVIEW

LOAD TIME

0.4 seconds

CONTACTS AT SIMPSONLAB.GITHUB.IO

ADD CONTACT

Login

TO VIEW CONTACTS

Remove Contacts

FOR PRIVACY ISSUES

CONTENT

PAGES IN
THIS WEBSITE

7

SSL

EXTERNAL LINKS

20

SITE IP

151.101.40.133

LOAD TIME

0.373 sec

SCORE

6.2

PAGE TITLE

Simpson Lab Blog · SimpsonLab blog | simpsonlab.github.io Reviews

<META> DESCRIPTION

Supporting R9 data in nanopolish. Two weeks ago I mentioned on twitter that I pushed a large series of changes to support R9 Oxford Nanopore data in nanopolish. I promised a blog post describing the changes then went off on my summer vacation - here it is, a little late. First, some background about R9 data. Back in March Clive Brown held a google hangout. On github contains instructions for using the new consensus workflow. ONT provided my lab with a batch of the latest flowcells. So far we have mostly ...

<META> KEYWORDS

1 simpson lab blog

2 archive

3 the readme

4 r9 polishing results

5 homopolymers

6 deprecating nanocorrect

7 which used daligner

8 and poa

9 and calling snps

10 and miniasm

CONTENT

Page content here

KEYWORDS ON PAGE

simpson lab blog,archive,the readme,r9 polishing results,homopolymers,deprecating nanocorrect,which used daligner,and poa,and calling snps,and miniasm,finding ebola snps,background,events,and here,the first algorithm,reference,snp haplotype,nanopore data

SERVER

GitHub.com

CONTENT-TYPE

utf-8

GOOGLE PREVIEW

Simpson Lab Blog · SimpsonLab blog | simpsonlab.github.io Reviews

https://simpsonlab.github.io

Supporting R9 data in nanopolish. Two weeks ago I mentioned on twitter that I pushed a large series of changes to support R9 Oxford Nanopore data in nanopolish. I promised a blog post describing the changes then went off on my summer vacation - here it is, a little late. First, some background about R9 data. Back in March Clive Brown held a google hangout. On github contains instructions for using the new consensus workflow. ONT provided my lab with a batch of the latest flowcells. So far we have mostly ...

INTERNAL PAGES

simpsonlab.github.io

1

Deprecating Nanocorrect

http://simpsonlab.github.io/2016/02/25/deprecating-nanocorrect

Feb 25, 2016. When Nick, Josh and I got together at the Newton Institute hackathon. In 2014 we wanted to see if assembling nanopore data was possible. Over the week we put together a pipeline inspired by pbdagcon. To correct sequencing errors in nanopore reads. This software, which we called nanocorrect. Improved the accuracy of our nanopore reads to around 97% after two rounds of correction. The corrected reads worked well in the Celera Assembler and we had very long contigs soon after the hackathon.

2

Finding Ebola SNPs

http://simpsonlab.github.io/2016/02/03/ebola-snps

Feb 3, 2016. Today Nature published our paper. Describing the use of the Oxford Nanopore MinION to track the Ebola outbreak in West Africa. Over on Nick Loman’s blog. You can read an excellent account of how this project started and progressed. For my part, I worked on the method that we used to call SNPs from the sequenced Ebola samples, which I’ll describe in this post. Nanopore sequencing measures the changes in electric current (termed. And in previous blog posts here. Last summer Nick and Matt Loose...

3

Nanopolish v0.4.0

http://simpsonlab.github.io/2015/10/07/nanopolish-v0.4.0

Nanopolish v0.4.0. Oct 7, 2015. This is a long overdue post describing recent changes to nanopolish. Last month Oxford Nanopore released a new sequencing kit, SQK006. As Nick notes. SQK006 also brings an increase in speed - from 30bp/s (SQK005) to 70bp/s (SQK006). With the sampling rate fixed to 3kHz we naturally expect more events to be missed by the event detector. We observed this in our analysis of SQK006 data and updated the initial transition probabilities in our HMM accordingly. Field has been rem...

4

Nanopolish v0.2.0

http://simpsonlab.github.io/2015/03/30/optimizing-hmm

Nanopolish v0.2.0. Mar 30, 2015. This post describes changes I have made to nanopolish. Our HMM-based consensus caller for Oxford Nanopore data. This post can be thought of as a long changelog with background and rationale. Josh Quick and I started working on nanpore assembly at a hackathon at the Newton Institute in Cambridge. Our initial goal was pretty simple; we wanted to see if we could run DALIGNER. I asked on twitter the best way to call out to a C library from Python and received many helpful rep...

5

Supporting R9 data in nanopolish

http://simpsonlab.github.io/2016/08/23/R9

Supporting R9 data in nanopolish. Aug 23, 2016. Two weeks ago I mentioned on twitter that I pushed a large series of changes to support R9 Oxford Nanopore data in nanopolish. I promised a blog post describing the changes then went off on my summer vacation - here it is, a little late. First, some background about R9 data. Back in March Clive Brown held a google hangout. On github contains instructions for using the new consensus workflow. ONT provided my lab with a batch of the latest flowcells. So far w...

UPGRADE TO PREMIUM TO VIEW 2 MORE

TOTAL PAGES IN THIS WEBSITE

7

SOCIAL ENGAGEMENT

Clive_G_Brown/status/758952296373886976

OTHER SITES

simpsonking.skyrock.com

simpsonking's blog - l'univers d'homer - Skyrock.com

L'univers d'homer. Un blog specifique au simpson pour info sur moi je vous envoie sur rockmouv95.skyrock.com. 20/04/2008 at 5:50 AM. 06/09/2008 at 7:14 AM. Subscribe to my blog! Ici git le blog des simpson en collaboration avec homer bart .marge.lisa.apu.le ve,deur de bd.moe.burns.l'equipe skinner.tahiti bob.les flanders. Please enter the sequence of characters in the field below. Posted on Sunday, 20 April 2008 at 5:53 AM. Please enter the sequence of characters in the field below. Le reverend lovejoy d...

simpsonkitchens.com

Default OaO Frameset

Device does not support frames.

simpsonl.skyrock.com

Blog de simpsonl - The simpsons - Skyrock.com

Mot de passe :. J'ai oublié mon mot de passe. Slt voila mon skyblog consacré entierement au simpsons! La seyne sur mer (83). Mise à jour :. Abonne-toi à mon blog! Voici la famille simpson avec de gauche a droite:. Marge, bart, lisa, homer et tou deriere la petite derniere maggy. Ou poster avec :. Retape dans le champ ci-dessous la suite de chiffres et de lettres qui apparaissent dans le cadre ci-contre. Posté le mercredi 28 février 2007 08:59. Ou poster avec :. Posté le mercredi 28 février 2007 09:01.

simpsonlab.com

Simpson Lab

I like building things and working with data. Apr 04, 2015. Python, Parallel Processing, and EC2. Quickly parallelize your python code and run on EC2. Feb 20, 2015. Man must explore, and this is exploration at its greatest. Problems look mighty small from 150 miles up. Feb 19, 2015. A post never shared is a post never written.

simpsonlab.community.uaf.edu

Simpson Research Laboratory at UAF | Using spectroscopy to study air-ice interactions from the microscopic to global scales

Simpson Research Laboratory at UAF. Welcome to the Simpson Research Lab’s webpage at the University of Alaska Fairbanks. Our research group studies arctic atmospheric chemistry with the goal of better understanding of how the unique conditions of the arctic region affects the transformation of pollutants. Our methods use spectroscopy to probe chemical composition of air, liquids, and solids. For examples of our projects, see the research. Page Recent results are shown on the news. Us to find out more.

simpsonlab.github.io

Simpson Lab Blog · SimpsonLab blog

Supporting R9 data in nanopolish. Two weeks ago I mentioned on twitter that I pushed a large series of changes to support R9 Oxford Nanopore data in nanopolish. I promised a blog post describing the changes then went off on my summer vacation - here it is, a little late. First, some background about R9 data. Back in March Clive Brown held a google hangout. On github contains instructions for using the new consensus workflow. ONT provided my lab with a batch of the latest flowcells. So far we have mostly ...

simpsonlabel.co.uk

Simpson Label | NSD International

Please click on the image above to go to the NSD International web site.

simpsonlalegende.skyrock.com

SimpsonLaLegende's blog - www.simpson le blog.net - Skyrock.com

Wwwsimpson le blog.net. Mon blog parle des simpson. 18/02/2009 at 1:47 AM. 09/07/2009 at 5:21 AM. Soundtrack of My Life. Subscribe to my blog! Les Simpson est la série qui compte le plus grand nombre d'épisodes à ce jour. Historique de la série. En 1987, appelés Shorts ou également Bumpers, il s'agissait d'une série d'intermèdes de 30 secondes pour The Tracey Ulman Show, show de la FOX. Selon la légende (qui est pourtant vraie! Chaque épisode comporte en moyenne 15800 dessins! 1955 : Naissance d'Homer.

simpsonland.com

simpsonland.com - This website is for sale! - simpsonland Resources and Information.

BUY or RENT this domain. This page provided to the domain owner free. By Sedo's Domain Parking. Disclaimer: Domain owner and Sedo maintain no relationship with third party advertisers. Reference to any specific service or trade mark is not controlled by Sedo or domain owner and does not constitute or imply its association, endorsement or recommendation.

simpsonland.skyrock.com

simpsonland's blog - Les simpson - Skyrock.com

26/04/2011 at 7:44 AM. 28/04/2011 at 2:06 PM. Subscribe to my blog! Bienvenue à tous , ce blog est dédié aux Simpson , dans ce blog vous y trouverez quiz , offres de com's , des informations sur Les Simpson . Venez vous amusez et surtout gagnez des com's. Don't forget that insults, racism, etc. are forbidden by Skyrock's 'General Terms of Use' and that you can be identified by your IP address (66.160.134.4) if someone makes a complaint. Please enter the sequence of characters in the field below. Edited o...

simpsonlandscape.com

Home - Simpson Landscape

ROI & Asset Preservation. Before & After. Ask Us A Question. Providing premium commercial landscape services in Dallas since 1985. Beautiful landscapes start with Simpson Landscape. The landscaping of your yard affects the curb appeal and influences the value of your home, and the outside of your property is the first thing visitors and potential home buyers see. Distinctive Landscaping At Its Finest. Simpson Landscape provides comprehensive landscape services for North Texas area residents, property own...