Lcolladotor.github.io

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L. Collado-Torres

  • At the Lieber Institute for Brain Development ( LIBD), I lead the R/Bioconductor-powered Team Data Science group that works on understanding the roots and signatures of disease (particularly psychiatric disorders) by zooming in across dimensions of gene activity
  • We achieve this by studying gene expression at all expression feature levels (genes, …

Lcolladotor.github.io   DA: 21 PA: 21 MOZ Rank: 42

Lcolladotor (Leonardo Collado-Torres) · GitHub

  • Find more information about myself at my website where I post my recent publications, talks, blog posts and other updates

Github.com   DA: 10 PA: 12 MOZ Rank: 23

R/Bioconductor-powered Team Data Science

  • Welcome to the R/Bioconductor-powered Team Data Science group by Leonardo Collado Torres and team members! The purpose of this website is to serve as a guide for training new team members and colleagues on how we do R/Bioconductor-powered Team Data Science
  • As a team, we run Data Science guidance sessions where we help others navigate the world

Lcolladotor.github.io   DA: 21 PA: 14 MOZ Rank: 37

Lcolladotor’s Gists · GitHub

GitHub Gist: star and fork lcolladotor's gists by creating an account on GitHub.

Gist.github.com   DA: 15 PA: 12 MOZ Rank: 30

Visitor Traffic For Lcolladotor.github.io/osca_LIIGH_UNAM

  • ClustrMaps.com aggregates public records to analyze the US cities, their social demography, and business environment
  • We cannot guarantee the accuracy, correctness and/or timeliness of …

Clustrmaps.com   DA: 14 PA: 11 MOZ Rank: 29

Shinyapps.io Settings #2

  • Part of an email I just wrote: Here's information about the shinyapps.io deployment settings #2
  • That's where I explain a bit more the memory, the limits, the R workers * connections, all that
  • Briefly, we have 10 instances of 8GB each, each with 1 R worker and 2 max connections, where peak memory can reach ~4 GB per user from logs.

Github.com   DA: 10 PA: 37 MOZ Rank: 52

Windows Installation Problems For GO.db That Is

  • Windows installation problems for GO.db that is needed by clusterProfiler
  • This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below
  • To review, open the file in an editor that reveals hidden Unicode characters.

Gist.github.com   DA: 15 PA: 45 MOZ Rank: 66

Rmarkdown Iframe Bug · GitHub

  • GitHub Gist: instantly share code, notes, and snippets.

Gist.github.com   DA: 15 PA: 45 MOZ Rank: 67

L. Collado-Torres Scilifelab 2017 Entry · GitHub

  • Collado-Torres scilifelab 2017 entry
  • author = {Kim, Daehwan and Pertea, Geo and Trapnell, Cole and Pimentel, Harold and Kelley, Ryan and Salzberg, Steven L}, In the last decade RNA sequencing (RNA-seq) has become the predominant assay for measuring gene expression
  • RNA-seq allows us to measure all expressed genes, improve gene and

Gist.github.com   DA: 15 PA: 45 MOZ Rank: 68

How To Write Academic Documents With GoogleDocs L

  • Insert references into a Google Doc
  • On your Google Chrome browser, install the F1000Workspace Google Docs add-on available here
  • Next, open up your Google Doc and you’ll see that F1000 appears in your toolbar

Lcolladotor.github.io   DA: 21 PA: 50 MOZ Rank: 80

Insert External Image Addin · Issue #269

Hi Yihui, I'm glad that you are super excited about the insert image addin idea =) I followed your instructions (deleted repo, re-forked, made a branch, sent PR from branch) so hopefully it's all good.

Github.com   DA: 10 PA: 28 MOZ Rank: 48

Actions/README.Rmd At Master · R-lib/actions · GitHub

  • GitHub Actions for the R community
  • Contribute to r-lib/actions development by creating an account on GitHub.

Github.com   DA: 10 PA: 46 MOZ Rank: 67

Autoplot() Error On A GRanges Object In Ggbio 1.10.8

just fixed in biovizBase 1.10.4 (bioc 2.13), biovizBase 1.11.4 (bioc 2.14 devel) Thanks, please let me know if you have further issues/problem.

Support.bioconductor.org   DA: 24 PA: 9 MOZ Rank: 45

DESeq2 Normalization When Using With Derfinder

  • Hi, I have a question about whether I should set the sizeFactors to 1 prior to using DESeq2 on the counts obtained from derfinder
  • I have normalized bigwig files ( using deepTools ), which I use as input to derfinder.

Support.bioconductor.org   DA: 24 PA: 11 MOZ Rank: 48

Introduction To Biocthis

  • 2.1 Using biocthis in your R package
  • If you haven’t made an R package yet, you can do so using usethis.That is, utilize usethis::create_package() with the package name of your choice
  • If you are using RStudio Desktop this function will open a new RStudio window and open R in the correct location
  • Otherwise, you might need to use setwd() to change directories.

Bioconductor.org   DA: 16 PA: 50 MOZ Rank: 80

[Pre-print] Transcriptome-scale Spatial Gene Expression In

  • Identification of layer-specific markers
  • spatial registration of snRNA-seq data
  • Layer-enrichment of neurodevelopmental and neuropsychiatric gene sets
  • Data-driven layer-enriched clustering in the DLPFC
  • This was a great collaboration between @LieberInstitute @jhubiostat @10xGenomics and in particular by @kr maynard @lmwebr @sudo BreeB

Support.bioconductor.org   DA: 24 PA: 10 MOZ Rank: 49

Blogdown Archetype (template)

  • In this blog post I describe how to make your blogdown post template, so you can easily use some of your favorite R code for citations, reproducibility, etc

Datacamp.com   DA: 16 PA: 50 MOZ Rank: 82

Consistent RNA Sequencing Contamination In GTEx And Other

  • A challenge of next generation sequencing is read contamination
  • We use Genotype-Tissue Expression (GTEx) datasets and technical metadata along with RNA-seq datasets from other studies to

Nature.com   DA: 14 PA: 28 MOZ Rank: 59

Contributing To The LIBD Rstats Club LIBD Rstats Club

  • In this blog post Leonardo Collado-Torres explains how to contribute posts to the LIBD rstats club
  • While some parameters are specific to this blog, you could also use this for creating your own community blog
  • Install necessary tools We first need to get the appropriate tools installed in our computer
  • R Lets start by installing the latest version of R.

Research.libd.org   DA: 17 PA: 50 MOZ Rank: 85

Annotation-agnostic Differential Expression Analysis

Leonardo Collado-Torres' talk at ENAR2016 on the expressed-regions approach implemented in the Bioconductor derfinder package

Slideshare.net   DA: 18 PA: 50 MOZ Rank: 87

Dissecting Human Brain Development At High Resolution

  • Dissecting human brain development at high resolution using RNA-seq 1
  • Dissecting human brain development at high resolution using RNA-seq Leonardo Collado-Torres @fellgernon #ENAR2015

Slideshare.net   DA: 18 PA: 50 MOZ Rank: 88

T Student Carvaca_cristina

  • Nombre: Cristina Carvaca Fecha: 11 Febrero del 2018 Tema: Distribución T Student Introducción La distribución de Student fue descrita en 1908 por William Sealy Gosset
  • Gosset trabajaba en una fábrica de cerveza, Guinness, que prohibía a sus empleados la publicación de artículos científicos debido a una

Slideshare.net   DA: 18 PA: 47 MOZ Rank: 86

Mathnex.us – Just Another WordPress Site

  • To this end, there is now a Slack workspace called simply “Mathematics.”
  • Within this workspace, channels can easily be set up to accomodate particular specialties — analysis, group theory, etc
  • Anyone can easily set up a free Slack account
  • To gain entry to some particular Slack workspaces (such as Mathematics), an invitation is required.

Mathnex.us   DA: 14 PA: 14 MOZ Rank: 50

Slack For Mathematicians – Mathnex.us

  • To get started with moderating, editing, and deleting comments, please visit the Comments screen in the dashboard

Mathnex.us   DA: 14 PA: 14 MOZ Rank: 51

Ten Simple Rules For Biologists Learning To Program

  • Perez-Riverol Y, Gatto L, Wang R, Sachsenberg T, Uszkoreit J, da Veiga Leprevost F, et al
  • Ten Simple Rules for Taking Advantage of Git and GitHub
  • View Article PubMed/NCBI Google Scholar 16

Journals.plos.org   DA: 17 PA: 21 MOZ Rank: 62

Get Read Counts For TCGA Samples Via Recount3

Hi, I created a RangedSummarizedExperiment object via the create_rse() function of the recount3 package (project == "LIHC" & file_source == "tcga").

Support.bioconductor.org   DA: 24 PA: 11 MOZ Rank: 60

Contributing To The LIBD Rstats Club R-bloggers

  • In this blog post Leonardo Collado-Torres explains how to contribute posts to the LIBD rstats club
  • While some parameters are specific to this blog, you could also use this for creating your own community blog
  • Install necessary tools We first need to …

R-bloggers.com   DA: 18 PA: 46 MOZ Rank: 90

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