Revision as of 15:33, 27 December 2011

Daniela Puiu's page

NCBI

DHS genomes

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 * [[dpuiu_JHU|JHU]]
 -->
-= 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