Version Differences for Dataset1
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(→PacBio corrected reads (PBcR))
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(→Short reads)
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| Line 2: | |||
| == Short reads == | == Short reads == | ||
| The paired-end illumina read data of ''E. coli'' were downloaded from Illumina ([http://www.illumina.com/truseq/tru_resources/datasets.ilmn |Illumina]) with a median insert size of 214 bp. More than 28.4 M reads. | The paired-end illumina read data of ''E. coli'' were downloaded from Illumina ([http://www.illumina.com/truseq/tru_resources/datasets.ilmn |Illumina]) with a median insert size of 214 bp. More than 28.4 M reads. | ||
| + | java -jar SamToFastq.jar INPUT=Ecoli_MG1655_s_6_1_bfast.bam FASTQ=Ecoli_MG1655_s1.fastq | ||
| + | java -jar SamToFastq.jar INPUT=Ecoli_MG1655_s_6_2_bfast.bam FASTQ=Ecoli_MG1655_s2.fastq | ||
| + | We have combined MiSeq_Ecoli_MG1655_110721_PF_R1.fastq and MiSeq_Ecoli_MG1655_110721_PF_R2.fastq to MiSeq_PE.fastq. | ||
| + | java convertFastqToFastaAndQual MiSeq_PE.fastq MiSeq_PE.fna MiSeq_PE.qual | ||
| + | convert-fasta-to-v2.pl -mean 214 -stddev 21 -m Mate_info -l Illumia_Ecoli -s Ecoli_MG1655_PE.fna -q Ecoli_MG1655_PE.qual > Ecoli_MG1655_PE.frg | ||
| == Long reads == | == Long reads == | ||
| 1 SMRT Cell of 10 kbp continuous long reads (CLR) for Escherichia coli K12 MG1655 were downloaded from [https://github.com/PacificBiosciences/DevNet/wiki/E%20coli%20K12%20MG1655%20Hybrid%20Assembly this link]. | 1 SMRT Cell of 10 kbp continuous long reads (CLR) for Escherichia coli K12 MG1655 were downloaded from [https://github.com/PacificBiosciences/DevNet/wiki/E%20coli%20K12%20MG1655%20Hybrid%20Assembly this link]. | ||