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wiki2016deseq2 [2017/11/30 08:16]
erin
wiki2016deseq2 [2017/11/30 09:06] (current)
erin
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 <​code>​ <​code>​
 $ cd  $ cd 
-$ cp -R /home/erin/04+$ cp -R /home/erin/04_deseq_demo
 </​code>​ </​code>​
  
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 Explore the acquired directory. ​ Explore the acquired directory. ​
  
-:!: **Common pitfall** When making metadata files, it is often useful to use excel. However, be careful with excel. Many errors can happen. Genes names jun-1 will change to JUNE-01. Also, tab and return characters will often be saved strangely. To avoid issues, ​copy and paste the excel information ​into TextWrangler and save it as a text file there. Alternatively,​ you can use ''​sed''​ commands or specialized functions (''​dos2unix''​) to convert special characters.+:!: **Common pitfall** When making metadata files, it is often useful to use excel. However, be careful with excel. Many errors can happen. Genes names jun-1 will change to JUNE-01. Also, tab and return characters will often be saved strangely. To avoid issues, ​try to open txt documents in excel using the **import** function and switch any text columns from **general** to **text** format. Also, to avoid retaining weird carriage returns or extra white space, you can copy excel spreadsheets ​into TextWrangler and save them as files there. ​
  
  
 === RStudio === === RStudio ===
-Open ''​~/EOP209_wt_v_mutant_DESeq2/02_SCRIPTS/​161120_wtVMut_DESeq2.R'' ​in RStudio.+Open RStudio using ''​http://rna.biology.colostate.edu:​8787''​
  
-Switch to RStudio for tutorial.+Let's open the R script ''​~/​04_deseq_demo/​171130_wtVMut_DESeq2.R''​
wiki2016deseq2.txt ยท Last modified: 2017/11/30 09:06 by erin