Hi!
I have paired-end Illumina genomic data in 4 libraries with insert sizes 180, 500, 800 and 2kbp. All the libraries are from one sample and they have been trimmed and quality filtered by the sequencing company and they are very high quality.
However, we got the CLC Genomics Workbench 7 to our computer and we're trying to assemble these libraries together into contigs with no reference sequence. Parameters other than defaults:
Wordsize: 64
Bubble size: 133
Mapping back to contigs
Perform scaffolding
However the assembly halts for days into the mapping-phase. Is this normal? The mapping back to contigs should be slow, but how slow should it be? The data is over 10 GB per library.
Thank you for all the help!
I have paired-end Illumina genomic data in 4 libraries with insert sizes 180, 500, 800 and 2kbp. All the libraries are from one sample and they have been trimmed and quality filtered by the sequencing company and they are very high quality.
However, we got the CLC Genomics Workbench 7 to our computer and we're trying to assemble these libraries together into contigs with no reference sequence. Parameters other than defaults:
Wordsize: 64
Bubble size: 133
Mapping back to contigs
Perform scaffolding
However the assembly halts for days into the mapping-phase. Is this normal? The mapping back to contigs should be slow, but how slow should it be? The data is over 10 GB per library.
Thank you for all the help!
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