Noi/NOTES/2012-2-29: Difference between revisions
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>Noi (Created page with '= ASM analysis of WGBB12878 = * Directory: '''/media/SeqStore2/120209_HiSeq/HL_WGBS/''' s_7_1_sequence.txt.gz s_7_2_sequence.txt.gz s_8_1_sequence.txt.gz s_8_2_sequence.txt.g…') |
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my $root = "/home/expresso/Noi_ASM/WGBS_12878/"; | my $root = "/home/expresso/Noi_ASM/WGBS_12878/"; | ||
my $readlength = 100; | my $readlength = 100; | ||
*Note: After finishing concatenate sequencing data into 12878.fastq, I got only 23.9 Gb data. I repeated again, but got the same amount of data, I guess that it possible that the space on expresso is not enough to put the whole data. Then I tried again by putting the concatenated file on /media/Ext12T/Noi_scratch2/Noi_ASM_Mysql-database which has a lot of space available. | |||
12878.libraryinfo.txt content | |||
/media/Ext12T/Noi_scratch2/Noi_ASM_Mysql-database/12878.fastq 1 |
Revision as of 16:29, 1 March 2012
ASM analysis of WGBB12878
- Directory: /media/SeqStore2/120209_HiSeq/HL_WGBS/
s_7_1_sequence.txt.gz s_7_2_sequence.txt.gz s_8_1_sequence.txt.gz s_8_2_sequence.txt.gz
- Concatenate and uncompressed data (no trimming required)
nohup less /media/SeqStore2/120209_HiSeq/HL_WGBS/*.gz > 12878.fastq
- In Master Execution Script, PipelineExecute-NP.pl
my $root = "/home/expresso/Noi_ASM/WGBS_12878/"; my $readlength = 100;
- Note: After finishing concatenate sequencing data into 12878.fastq, I got only 23.9 Gb data. I repeated again, but got the same amount of data, I guess that it possible that the space on expresso is not enough to put the whole data. Then I tried again by putting the concatenated file on /media/Ext12T/Noi_scratch2/Noi_ASM_Mysql-database which has a lot of space available.
12878.libraryinfo.txt content
/media/Ext12T/Noi_scratch2/Noi_ASM_Mysql-database/12878.fastq 1