Difference between revisions of "User:Dpuiu"

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* [[dpuiu_JHU|JHU]]
 
* [[dpuiu_JHU|JHU]]
 
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= Test data sets =
 
 
'''Sanger (1)'''
 
* 23,536 reads ; 11,652 mates; 1 lib : 4.5K mean; 7X cvg
 
* Location: /fs/szasmg/Bacteria/F_tularensis/TA_FTP/libs/G878A1.frg
 
 
'''Sanger (2)'''
 
* 100,781 reads ; 50,008 mates; 24 libs : 4.5K & 10K means; 16X cvg
 
* Location: /fs/szasmg/Bacteria/F_tularensis/TA_FTP/libs/G*frg
 
 
'''Solexa unpaired'''
 
* 2,659,250 36bp reads
 
* Location: /fs/szdata/Solexa/Streptococcus_suis/suisp17/strip3.fna
 
 
'''Solexa paired (1)'''
 
* 142,858 35bp reads;
 
* assemble into one 99,995 ctg/scaff by velvet
 
* Location /nfshomes/dpuiu/szdevel/velvet/data/test_reads.fa
 
 
'''Solexa paired (2)'''
 
* 92,143 35bp reads;
 
* assemble into 1 scaff by velvetp.sh  (velveth -shortPaired)
 
* assemble into 5 contigs by velvet.sh            (velveth)
 
* Location /nfshomes/dpuiu/szdevel/velvet/data/test_reads.subset.fa
 
 
'''Solexa & 454'''
 
* [http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?study=SRP001087 E coli Whole Genome Sequencing on 454 and Illumina]
 
* Location /fs/szattic-asmg4/dpuiu/Ecoli
 

Revision as of 15:33, 27 December 2011