Noi/NOTES/2012-7-20: Difference between revisions
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>Noi (Created page with "http://genome-tech.ucsd.edu/LabNotes/index.php/noi:DMR220k_LabNotes '''Link to calendar'''<br> = ASM analysis of the ten tissue of N37 sample = * ASM analysis of this data...") |
>Noi No edit summary |
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N37-SM.fastq | N37-SM.fastq | ||
N37-stomach.fastq | N37-stomach.fastq | ||
Changed one line in PipelineExecute-NP.pl script | |||
my $root = "/home/expresso/Noi_ASM/N37_10tissues/"; | |||
my $readlength = 74; |
Revision as of 01:07, 20 July 2012
ASM analysis of the ten tissue of N37 sample
- ASM analysis of this data set was put on hold due to the fastq file format. The issue are:
- The readIDs format is incompatible to Robert's pipeline
- The quality score of this data set is Phred33 based. It is supposed to be Phred64 to fit to the pieline
- Dr. Zhang helped me to fix these issues (detailed will be added later)
On genome miner: Directory of fastq files: /home/kunzhang/CpgMIP/Data/N37_10_tissues/fastq Directory running ASM: /home/expresso/Noi_ASM/N37_10tissues Sample list (in fastq files) N37-colon.fastq N37-CRBL.fastq N37-FL.fastq N37-heart.fastq N37-liver.fastq N37-lung.fastq N37-pancreas.fastq N37-SI.fastq N37-SM.fastq N37-stomach.fastq Changed one line in PipelineExecute-NP.pl script my $root = "/home/expresso/Noi_ASM/N37_10tissues/"; my $readlength = 74;