Rui:RNAseq analysis on Hiseq111005: Difference between revisions

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* Data was stored in genome-miner:/media/Ext6T/111005_SN853/RNAseq
* Data was stored in genome-miner:/media/Ext6T/111005_SN853/RNAseq


# make shortcut for input data:  
* make shortcut for input data:  
  ln -s /media/Ext6T/111005_SN853/RNAseq Hiseq111005/
  ln -s /media/Ext6T/111005_SN853/RNAseq Hiseq111005/
# make a shorcut for output data:  
* make a shorcut for output data:  
  ln -s /media/Ext4T/DataDrive.backup/RL_Scratch/RNAseq RNAseq/
  ln -s /media/Ext4T/DataDrive.backup/RL_Scratch/RNAseq RNAseq/
# make copy of sequence file
* make copy of sequence file
  cp Hiseq111005/* RNAseq/
  cp Hiseq111005/* RNAseq/
# combine different files in different lanes into one file for each index:  
* combine different files in different lanes into one file for each index:  
  less *Indx3.txt > Indx3.txt
  less *Indx3.txt > Indx3.txt


===Tophat===
===Tophat===

Revision as of 23:33, 14 October 2011

RNAseq analysis on Hiseq111005

Data

  • make shortcut for input data:
ln -s /media/Ext6T/111005_SN853/RNAseq Hiseq111005/
  • make a shorcut for output data:
ln -s /media/Ext4T/DataDrive.backup/RL_Scratch/RNAseq RNAseq/
  • make copy of sequence file
cp Hiseq111005/* RNAseq/
  • combine different files in different lanes into one file for each index:
less *Indx3.txt > Indx3.txt

Tophat