Posts Tagged ‘x57l’

Pandoc – About pandoc

Sunday, December 2nd, 2018

https://pandoc.org/
appears to convert markdown, DOCX, latex & HTML

BioData18

Monday, November 26th, 2018

Biological Data Science ’18
https://meetings.cshl.edu/meetings.aspx?meet=DATA&year=18

FAVORITE TWEETS (public)

https://docs.google.com/spreadsheets/d/e/2PACX-1vTV8Oa4DeI9RkFa0qJNSyflh783if2RecT1naeMmwFQzuBNJqP48SmzzsmKg1ixOfFbQ7Tht5uUAOUV/pubhtml

FAVORITE TWEETS (private)

http://meetings.gersteinlab.org/2018/11.23/Favorite-tweets-from-Biological-Data-Science-2018–i0biodata18-biodata18.xlsx

http://meetings.gersteinlab.org/2018/11.25/Printout-of–Favorite-tweets-from-Biological-Data-Science-2018–i0biodata18-biodata18.pdf

SLIDE PICS

http://meetings.gersteinlab.org/2018/11.17/MG-Pics-from-i0biodata18-incl-many-slides/

Why “Many-Model Thinkers” Make Better Decisions

Saturday, November 24th, 2018

Why “Many-Model Thinkers” Make Better Decisions
https://HBR.org/2018/11/why-many-model-thinkers-make-better-decisions Intuitive description of #MachineLearning concepts. Focuses on practical business contexts (eg hiring) & explains how #ensemble models & boosting can make better choices

QT:{{”
“The agent based model is not necessarily better. It’s value comes from focusing attention where the standard model does not.

The second guideline borrows the concept of boosting, …Rather than look for trees that predict with high accuracy in isolation, boosting looks for trees that perform well when the forest of current trees does not.

A boosting approach would take data from all past decisions and see where the first model failed. …The idea of boosting is to go searching for models that do best specifically when your other models fail.

To give a second example, several firms I have visited have hired computer scientists to apply techniques from artificial intelligence to identify past hiring mistakes. This is boosting in its purest form. Rather than try to use AI to simply beat their current hiring model, they use AI to build a second model that complements their current hiring model. They look for where their current model fails and build new models to complement it.”
“}}

How to identify anonymous prose – Johnson

Saturday, November 3rd, 2018

How to identify anonymous prose
http://Economist.com/books-and-arts/2018/09/22/how-to-identify-anonymous-prose Interesting parallels between #textmining & genome seq. analysis (eg finding characteristic k-mers for a bacterial species)

Dynamic Human Environmental Exposome Revealed by Longitudinal Personal Monitoring: Cell

Saturday, November 3rd, 2018

Dynamic…Environmental #Exposome Revealed by
Longitudinal…Monitoring, by @SnyderShot lab
https://www.Cell.com/cell/fulltext/S0092-8674(18)31121-8 QT: “Developed…method to monitor personal airborne biological & chem. exposures & followed…15 individuals for up to 890 days & >66… locations.”

https://www.cell.com/cell/pdf/S0092-8674(18)31121-8.pdf

Sigma Xi Conference this Week

Tuesday, October 30th, 2018

My notes from the Sigma Xi Conference

LECTURES

http://lectures.gersteinlab.org/summary/Using-population-scale-functional-genomics-mental-disease-n-exploiting-data-exhaust-20181025-i0sigma/

http://lectures.gersteinlab.org/summary/Thoughts-on-Annotation-Variants-Application-disease-context–20182310-i0sigma+ucsf/

TWEETS

Favorited-Tweets-from-i0sigma-meeting.xlsx

https://docs.google.com/spreadsheets/d/e/2PACX-1vQ9yzRc3_Dl0bUJ5K4oxNAdLjNdZYiMk-LuZTYxn-3Spmli94nc15x4zd_lUiw3NX4BxOZNqryQ462J/pubhtml

http://meetings.gersteinlab.org/2018/10.30/Favorited-Tweets-from-i0sigma-meeting.xlsx

http://meetings.gersteinlab.org/2018/10.30/printout-of-liked-tweets-from-i0sigma.pdf

LINKS

https://linkstream2.gerstein.info/tag/i0sigma/

OTHER

Slides (Private)

http://meetings.gersteinlab.org/2018/10.30/For%20labdropbox%20-%20Many%20slide%20pics%20from%20SigmaXi%20meeting%20-%20i0sigma%20–/

DB: Sorting files in chronological order of creation–not by modified

Friday, October 12th, 2018

Dropbox does not currently have a feature to sort files via chronological order.

We can see all of your files if you go to the following link: www.dropbox.com/events

The Evolutionary Origin of Descending Testicles – The New York Times

Saturday, August 18th, 2018

https://www.nytimes.com/2018/06/29/science/descending-testicles-evolution.html

genome-wide starr-seq + sources of experimental bias

Monday, August 13th, 2018

quite relevant
https://www.nature.com/articles/nmeth.4534

Resolving systematic errors in widely used enhancer activity assays in human cells

Felix Muerdter
, Łukasz M Boryń
, Ashley R Woodfin
, Christoph Neumayr
, Martina Rath
, Muhammad A Zabidi
, Michaela Pagani
, Vanja Haberle
, Tomáš Kazmar
, Rui R Catarino
, Katharina Schernhuber
, Cosmas D Arnold
& Alexander Stark

Nature Methods volume 15, pages141–149 (2018)

Dark DNA: The missing matter at the heart of nature | New Scientist

Wednesday, August 8th, 2018

Dark DNA: The missing matter at the heart of nature
https://www.newscientist.com/article/mg23731680-200-dark-dna-the-missing-matter-at-the-heart-of-nature/ Nice discussion of the implications of difficult to sequence bits of the genome (eg highly GC rich regions)