Publications by Robbie Conner
Final Assignment SLC30A9
https://docs.google.com/spreadsheets/d/1NE5nCe6rFW9X-ck4PhIlGwUuhIO2BhLeE9mlcn51-M0/edit#gid=0 https://rpubs.com/lowbrowR/844554 #Introduction # Q9BRR0 (ZKSC3_HUMAN): The gene, SLC30A9 plays a key role in activating transcription for Wnt-responsive genes and is a secondary coactivator for nuclear receptors. #Resources/References #https://www.gene...
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ggplot2 and ggpubr test
gpubr - allometric data Allometric data - classic case of regression, using logs, using non-linear model too library(compbio4all) Vocab wrapper ggplot2 ggpubr $ operator smoother continous data categorical data Learning objectives Know what a wrapper is Know the relationship between ggplot2 and ggpubr Be able to run code that makes graphs wit...
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Accessing data from Google Docs
The goal of this exercise is to make you familiar with how to download data from Google Sheets and to briefly review some key concepts R functions and coding concepts. We’ll do the following things (TODO: MAKE YOUR OWN OUTLINE) Packages ## Google sheets download package # comment this out when you are done #install.packages("googlesheets4") ...
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Pie Graphs from Article
Introduction The data was analyzed by Alice B. Popejoy who is a PhD candisate and Stephanie M. Fullerton who is an associate professor. The data is accessed through the GWAS Catalog (collection of human genome-associated studies); race, ethnicity, and ancestry is extranted from this comprehensive summary of genetic research. #The process had to...
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Introduction to dotplots in R
Sequence dotplots in R By: Avril Coghlan. Adapted, edited and expanded: Nathan Brouwer under the Creative Commons 3.0 Attribution License (CC BY 3.0). NOTE: I’ve added some new material that is rather terse and lacks explication. Good sources of more info: https://omicstutorials.com/interpreting-dot-plot-bioinformatics-with-an-example/ http://r...
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Investigating your shroom for the presence of repeats
Add the necessary code to make this script function. Preliminaries Load packages library(seqinr) library(rentrez) library(compbio4all) library(Biostrings) ## Loading required package: BiocGenerics ## Loading required package: parallel ## ## Attaching package: 'BiocGenerics' ## The following objects are masked from 'package:parallel': ## ...
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Fasta NC_000004.12
This is a modification of “DNA Sequence Statistics” from Avril Coghlan’s A little book of R for bioinformatics.. Most of the text and code was originally written by Dr. Coghlan and distributed under the Creative Commons 3.0 license. NOTE: There is some redundancy in this current draft that needs to be eliminated. Functions library() help...
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FASTA download for SLC30A9
This is a modification of “DNA Sequence Statistics” from Avril Coghlan’s A little book of R for bioinformatics.. Most of the text and code was originally written by Dr. Coghlan and distributed under the Creative Commons 3.0 license. NOTE: There is some redundancy in this current draft that needs to be eliminated. Functions library() help...
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Robbie's Rpub .Rmd link assignment
Assignment: Your assignment is to use your notes from class - along with help from classmates, UTAs, and me - to turn this script into a fleshed-out description of what is going on. This is a substantial project - we’ll work on it in steps over the rest of the unit. We are currently focused on the overall process and will cover the details over...
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Phylogeny
{r setup, include=FALSE} # knitr header - do not touch knitr::opts_chunk$set(echo = TRUE) install.packages(“BiocManager”) library(BiocManager) install.packages(“devtools”) library(“devtools”) Github install.packages(“compbio4all”) library(“compbio4all”) install(“compbio4all”) Bioconductor install.packages(“Biostrings�...
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