3276 search results for "MAP"

multiple annotation in ChIPseeker

October 1, 2014
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multiple annotation in ChIPseeker

Nearest gene annotation Almost all annotation software calculate the distance of a peak to the nearest TSS and assign the peak to that gene. This can be misleading, as binding sites might be located between two start sites of different genes or hit different genes which have the same TSS location in the genome. Read More:...

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Transparent hurricane paths in R

October 1, 2014
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Transparent hurricane paths in R

Arthur Charpentier has written a really nice blog post about obtaining hurricane tracks and plotting them. He then goes on to do other clever Markov process models, but as a dataviz guy who knows almost nothing about meteorology, I want to … Continue reading →

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Generating Hurricanes with a Markov Spatial Process

September 30, 2014
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Generating Hurricanes with a Markov Spatial Process

The National Hurricane Center (NHC) collects datasets with all  storms in North Atlantic, the North Atlantic Hurricane Database (HURDAT). For all sorms, we have the location of the storm, every six jours (at midnight, six a.m., noon and six p.m.). Note that we have also the date, the maximal wind speed – on a 6 hour window – and...

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Syrian Refugee Settlement Clinic Locations

September 30, 2014
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Syrian Refugee Settlement Clinic Locations

Previously I posted about the location of refugee settlements and how that had grown in density over time as well as in numbers.  As many NGOs and non-profits work in the area, they are providing much needed assistance to the people living around ...

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TURF Analysis: A Bad Answer to the Wrong Question

September 29, 2014
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TURF Analysis: A Bad Answer to the Wrong Question

Now that R has a package performing Total Unduplicated Reach and Frequency (TURF) Analysis, it might be a good time to issue a warning to all R users. DON'T DO IT!The technique itself is straight out of media buying from the 1950s. Given some number of...

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A bioinformatics walk-through: Accessing protein-protein interaction interfaces for all known protein structures with PDBe PISA

September 28, 2014
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A bioinformatics walk-through: Accessing protein-protein interaction interfaces for all known protein structures with PDBe PISA

If this summer’s posting became a little infrequent, part of the blame lies with computational research I’ve been working on, regarding the systems biology of chromosomal translocations and the ensuing chimeric proteins at the Medical Research Council Laboratory of Molecular Biology in Cambridge. A sizeable part of bioinformatics ‘dry lab’ work falls into what has been described in the Police militarization in the US, over time

The militarization of local police departments here in the US has been much in the news lately, and the New York Times published in June an in-depth article on how materiel from wars has ended up in the hands of US counties. Besides the traditional reporting it's a fantastic piece of data journalism: the Times submitted a freedom-of-information request...

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Overcoming D3 Cartographic Envy With R + ggplot

September 25, 2014
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Overcoming D3 Cartographic Envy With R + ggplot

When I used one of the Scotland TopoJSON files for a recent post, it really hit me just how much D3 cartography envy I had/have as an R user. Don’t get me wrong, I can conjure up D3 maps pretty well and the utility of an interactive map visualization goes without saying, but

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Google location data — Where I’ve been.

September 25, 2014
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Google location data — Where I’ve been.

I was emailed by a friend that was looking into their google location data and had asked if I had ever used a json file before in R. I said I had not, but I knew there were packages to do such things. The things I sent were things he had already tried,...

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Google location data — Where I’ve been.

September 25, 2014
By
Google location data — Where I’ve been.

I was emailed by a friend that was looking into their google location data and had asked if I had ever used a json file before in R. I said I had not, but I knew there were packages to do such things. The things I sent were things he had already tried,...

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